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This page was generated on 2025-10-13 12:03 -0400 (Mon, 13 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4864
lconwaymacOS 12.7.1 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4652
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4597
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4586
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 208/2346HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-10-12 13:45 -0400 (Sun, 12 Oct 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: b5e26aa
git_last_commit_date: 2025-06-24 10:11:00 -0400 (Tue, 24 Jun 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped


CHECK results for biodbChebi on nebbiolo2

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: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings biodbChebi_1.15.1.tar.gz
StartedAt: 2025-10-12 21:31:29 -0400 (Sun, 12 Oct 2025)
EndedAt: 2025-10-12 21:33:04 -0400 (Sun, 12 Oct 2025)
EllapsedTime: 95.2 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings biodbChebi_1.15.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck’
* using R version 4.5.1 Patched (2025-08-23 r88802)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* 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 loading without being on the library search path ... 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 re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

biodbChebi.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD INSTALL biodbChebi
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/site-library’
* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.15.1’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R version 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-10-12 21:32:29.792][biodb::testContext]
biodb.INFO [2025-10-12 21:32:29.795][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-12 21:32:29.796][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-10-12 21:32:29.797][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-12 21:32:29.798][biodb::testContext]
biodb.INFO [2025-10-12 21:32:29.806][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-12 21:32:29.808][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-12 21:32:29.818][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-12 21:32:29.819][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-12 21:32:29.820][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-12 21:32:29.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:29.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:29.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:29.824][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-12 21:32:29.847][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-12 21:32:29.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:29.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:29.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:29.852][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-12 21:32:29.853][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-12 21:32:29.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:29.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:29.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:29.869][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-12 21:32:29.870][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-12 21:32:29.871][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-12 21:32:29.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:29.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:29.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:29.875][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-12 21:32:29.876][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-12 21:32:29.878][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-12 21:32:29.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:29.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:29.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:29.882][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-12 21:32:29.883][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-12 21:32:29.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:29.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:29.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:29.887][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-12 21:32:29.888][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-12 21:32:29.889][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-12 21:32:29.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:29.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:29.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:29.893][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-12 21:32:29.894][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-12 21:32:29.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:29.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:29.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:29.898][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-12 21:32:29.900][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-12 21:32:29.901][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-12 21:32:29.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:29.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:29.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:29.905][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-12 21:32:29.906][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-12 21:32:29.907][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-12 21:32:29.908][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-12 21:32:29.909][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-12 21:32:29.911][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-12 21:32:29.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:29.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:29.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:29.915][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-12 21:32:29.916][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-12 21:32:29.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:29.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:29.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:29.920][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-12 21:32:29.921][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-12 21:32:29.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:29.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:29.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:29.925][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-12 21:32:29.927][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-12 21:32:29.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:29.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:29.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:29.931][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-12 21:32:29.932][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-12 21:32:29.933][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-12 21:32:29.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:29.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:29.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:29.937][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-12 21:32:29.938][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-12 21:32:29.946][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-12 21:32:29.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:29.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:29.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:29.950][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-12 21:32:29.952][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-12 21:32:29.953][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-12 21:32:29.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:29.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:29.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:29.960][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-12 21:32:30.000][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:30.018][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-12 21:32:30.020][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.021][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:30.022][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.023][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:30.024][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:30.026][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-12 21:32:30.027][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-12 21:32:30.028][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:30.029][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.030][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-12 21:32:30.031][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:30.032][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:30.034][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.035][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-12 21:32:30.035][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-12 21:32:30.035][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-12 21:32:30.035][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-12 21:32:30.035][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-12 21:32:30.036][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-12 21:32:30.037][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:30.038][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:30.039][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:30.040][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:30.041][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:30.042][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:30.043][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:30.045][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:30.046][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:30.047][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:30.048][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:30.049][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-12 21:32:30.051][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:30.052][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-12 21:32:30.053][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.055][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:30.056][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.057][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:30.058][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:30.059][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-12 21:32:30.060][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-12 21:32:30.061][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:30.062][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.064][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-12 21:32:30.065][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:30.066][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:30.067][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.068][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-12 21:32:30.068][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-12 21:32:30.068][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-12 21:32:30.068][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-12 21:32:30.068][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-12 21:32:30.069][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-12 21:32:30.070][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:30.071][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:30.072][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:30.074][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:30.075][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:30.076][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:30.077][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:30.078][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:30.079][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:30.080][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:30.081][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:30.082][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-12 21:32:30.085][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.086][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-12 21:32:30.087][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.088][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:30.089][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.090][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:30.091][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:30.092][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-12 21:32:30.094][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-12 21:32:30.095][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:30.096][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:30.097][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-12 21:32:30.098][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:30.099][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:30.100][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.102][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:30.103][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-12 21:32:30.104][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:30.105][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:30.106][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:30.107][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:30.108][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:30.109][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:30.111][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:30.112][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:30.113][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:30.114][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:30.115][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:30.116][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-12 21:32:30.118][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.126][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-12 21:32:30.128][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.129][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:30.130][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.131][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:30.132][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:30.133][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-12 21:32:30.134][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-12 21:32:30.135][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:30.137][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:30.138][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-12 21:32:30.139][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:30.140][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:30.141][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.142][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:30.143][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-12 21:32:30.144][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:30.145][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:30.146][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:30.147][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:30.148][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:30.149][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:30.151][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:30.152][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:30.153][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:30.154][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:30.155][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:30.160][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-12 21:32:30.161][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.177][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.DEBUG[2025-10-12 21:32:30.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.202][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[2025-10-12 21:32:30.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.227][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.DEBUG[2025-10-12 21:32:30.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.244][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-12 21:32:30.249][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-12 21:32:30.251][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-12 21:32:30.253][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-12 21:32:30.254][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-12 21:32:30.256][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-12 21:32:30.258][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-12 21:32:30.259][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-12 21:32:30.261][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-12 21:32:30.262][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-12 21:32:30.264][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-12 21:32:30.266][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-12 21:32:30.267][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-12 21:32:30.269][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-12 21:32:30.270][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-12 21:32:30.272][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-12 21:32:30.273][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-12 21:32:30.275][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-12 21:32:30.277][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-12 21:32:30.278][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-12 21:32:30.280][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-12 21:32:30.281][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-12 21:32:30.283][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-12 21:32:30.285][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-12 21:32:30.286][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-12 21:32:30.288][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-12 21:32:30.289][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-12 21:32:30.291][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-12 21:32:30.292][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-12 21:32:30.294][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-12 21:32:30.296][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-12 21:32:30.297][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-12 21:32:30.299][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-12 21:32:30.300][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-12 21:32:30.302][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-12 21:32:30.304][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-12 21:32:30.305][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-12 21:32:30.310][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-12 21:32:30.312][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-12 21:32:30.313][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-12 21:32:30.319][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-12 21:32:30.325][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-12 21:32:30.327][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-12 21:32:30.333][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-12 21:32:30.339][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-12 21:32:30.341][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-12 21:32:30.347][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-12 21:32:30.349][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-12 21:32:30.350][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-12 21:32:30.352][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-12 21:32:30.354][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-12 21:32:30.355][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-12 21:32:30.357][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-12 21:32:30.359][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-12 21:32:30.360][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-12 21:32:30.362][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-12 21:32:30.364][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-12 21:32:30.365][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-12 21:32:30.367][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-12 21:32:30.369][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-12 21:32:30.370][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-12 21:32:30.372][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-12 21:32:30.373][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-12 21:32:30.375][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-12 21:32:30.377][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-12 21:32:30.378][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-12 21:32:30.380][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-12 21:32:30.382][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-12 21:32:30.383][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-12 21:32:30.385][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-12 21:32:30.387][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-12 21:32:30.388][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-12 21:32:30.390][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-12 21:32:30.392][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-12 21:32:30.393][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-12 21:32:30.395][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-12 21:32:30.397][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-12 21:32:30.398][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-12 21:32:30.400][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-12 21:32:30.414][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-12 21:32:30.417][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-12 21:32:30.419][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-12 21:32:30.422][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-12 21:32:30.437][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-12 21:32:30.441][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-12 21:32:30.446][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-12 21:32:30.448][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.451][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:30.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:30.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.471][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.DEBUG[2025-10-12 21:32:30.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:30.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:30.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:30.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:30.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:30.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:30.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:30.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:30.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.520][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.DEBUG[2025-10-12 21:32:30.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:30.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:30.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:30.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:30.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:30.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:30.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:30.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:30.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:30.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:30.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.564][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[2025-10-12 21:32:30.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:30.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:30.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:30.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:30.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:30.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:30.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.587][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[2025-10-12 21:32:30.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:30.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:30.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:30.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:30.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:30.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:30.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:30.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:30.610][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-12 21:32:30.622][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-12 21:32:30.625][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:30.626][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-12 21:32:30.628][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.629][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:30.631][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.632][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:30.633][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.635][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-12 21:32:30.636][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-12 21:32:30.638][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:30.639][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.640][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-12 21:32:30.642][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:30.643][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-12 21:32:30.643][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-12 21:32:30.643][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-12 21:32:30.643][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-12 21:32:30.643][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-12 21:32:30.643][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-12 21:32:30.643][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-12 21:32:30.643][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-12 21:32:30.643][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-12 21:32:30.643][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-12 21:32:30.643][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-12 21:32:30.645][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:30.646][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-12 21:32:30.646][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-12 21:32:30.646][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-12 21:32:30.647][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-12 21:32:30.649][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:30.650][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:30.651][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:30.652][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:30.653][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:30.654][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:30.655][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-12 21:32:30.655][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-12 21:32:30.657][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:30.658][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:30.659][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:30.660][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-12 21:32:30.660][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-12 21:32:30.668][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-12 21:32:30.670][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-12 21:32:30.672][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-12 21:32:30.674][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-12 21:32:30.676][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-12 21:32:30.677][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-12 21:32:30.706][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-12 21:32:30.725][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-12 21:32:30.736][biodb::testThat]
biodb.INFO [2025-10-12 21:32:30.748][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-10-12 21:32:30.749][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:30.750][biodb::testThat]
biodb.TRACE[2025-10-12 21:32:30.757][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-10-12 21:32:30.760][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:30.764][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:30.775][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:30.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:30.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:30.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:30.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:30.794][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:30.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:30.806][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:30.807][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:30.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.810][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:30.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:30.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.831][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:30.832][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:30.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.835][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.867][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:30.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:30.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.873][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:30.874][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:30.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.876][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.878][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:30.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:30.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.883][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:30.884][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:30.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.886][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:30.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:30.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.892][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:30.894][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:30.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.896][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.897][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:30.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:30.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.902][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:30.903][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:30.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.905][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.907][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:30.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:30.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.912][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:30.913][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:30.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.915][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.917][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:30.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:30.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.921][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:30.923][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:30.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.925][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:30.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:30.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.931][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:30.932][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:30.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.936][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.938][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:30.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:30.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.949][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:30.951][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:30.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.955][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.958][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:30.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:30.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.966][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:30.968][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:30.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.970][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.971][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:30.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:30.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:30.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:30.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:30.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:30.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:30.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:30.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:30.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:30.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:30.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:30.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:30.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:30.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:31.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:31.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:31.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:31.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:31.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:31.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:31.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:31.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:31.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:31.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:31.122][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-10-12 21:32:31.126][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:31.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:31.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.132][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:31.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:31.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.178][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:31.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:31.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.194][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:31.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:31.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.200][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:31.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:31.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:31.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:31.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.210][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-12 21:32:31.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-12 21:32:31.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.215][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-12 21:32:31.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-12 21:32:31.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.224][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-12 21:32:31.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-12 21:32:31.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.229][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-12 21:32:31.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-12 21:32:31.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:31.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:31.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:31.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:31.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:31.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:31.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:31.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:31.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:31.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:31.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:31.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:31.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:31.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:31.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:31.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:31.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:31.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:31.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.325][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:31.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:31.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:31.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:31.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:31.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:31.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:31.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:31.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:31.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:31.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.366][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:31.368][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:31.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.370][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:31.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:31.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:31.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:31.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:31.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:31.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:31.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:31.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.402][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:31.403][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:31.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.406][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:31.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:31.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.429][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:31.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:31.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.435][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:31.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:31.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.440][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:31.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:31.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.445][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:31.446][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:31.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.448][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.449][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:31.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:31.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.464][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:31.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:31.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.476][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:31.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:31.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.481][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:31.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:31.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.486][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:31.488][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:31.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.490][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.491][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:31.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:31.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:31.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:31.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:31.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:31.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.520][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:31.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:31.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.528][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:31.529][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:31.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.531][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:31.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:31.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:31.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:31.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:31.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:31.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:31.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:31.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.571][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:31.573][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:31.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.576][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:31.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:31.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.655][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:31.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:31.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.661][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:31.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:31.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.667][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:31.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:31.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.673][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:31.675][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:31.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.677][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.679][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:31.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:31.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.700][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-12 21:32:31.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:31.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.713][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-12 21:32:31.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:31.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.724][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-12 21:32:31.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:31.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.730][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-12 21:32:31.732][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:31.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.735][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.737][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-12 21:32:31.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:31.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.758][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:31.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:31.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.765][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:31.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:31.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.771][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:31.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:31.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.778][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:31.780][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:31.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.783][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.785][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:31.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:31.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.805][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:31.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:31.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.814][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:31.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:31.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.821][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:31.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:31.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.834][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:31.836][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:31.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.839][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.840][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:31.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:31.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.859][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:31.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:31.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.866][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:31.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:31.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.873][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:31.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:31.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.880][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:31.881][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:31.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.884][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.886][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:31.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:31.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.905][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:31.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:31.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.912][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:31.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:31.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.919][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:31.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:31.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.926][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:31.927][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:31.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.931][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:31.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:31.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.952][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:31.954][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:31.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.958][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.966][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:31.968][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:31.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.971][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:31.988][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:31.990][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:31.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:31.994][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.001][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:32.003][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:32.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.006][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.014][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:32.016][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:32.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.019][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.026][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:32.028][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:32.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.031][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.039][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:32.041][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:32.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.044][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.052][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:32.054][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:32.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.057][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.064][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-12 21:32:32.066][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:32.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.070][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.077][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:32.079][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:32.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.082][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.090][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:32.092][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:32.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.095][ef$get] fields variable is a list.
biodb.INFO [2025-10-12 21:32:32.108][biodb::testThat]
biodb.INFO [2025-10-12 21:32:32.109][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-10-12 21:32:32.111][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:32.113][biodb::testThat]
biodb.DEBUG[2025-10-12 21:32:32.137][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-10-12 21:32:32.142][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:32.148][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:32.159][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-10-12 21:32:32.161][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:32.204][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:32.206][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:32.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:32.212][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:32.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:32.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:32.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:32.225][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:32.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:32.231][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:32.232][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:32.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.235][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:32.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:32.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.275][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:32.278][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:32.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.281][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.283][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:32.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:32.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.287][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:32.289][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:32.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.299][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.300][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:32.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:32.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.304][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:32.306][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:32.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.308][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.309][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:32.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:32.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.314][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:32.315][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:32.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.317][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.318][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:32.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:32.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.323][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:32.324][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:32.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.326][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.327][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:32.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:32.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.332][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:32.333][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:32.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.335][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.336][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:32.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:32.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.341][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:32.342][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:32.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.344][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:32.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:32.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.350][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:32.351][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:32.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.353][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.355][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:32.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:32.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.360][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:32.361][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:32.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.363][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.364][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:32.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:32.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.369][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:32.370][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:32.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.372][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.374][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:32.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:32.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.378][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:32.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:32.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:32.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:32.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:32.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:32.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:32.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:32.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:32.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:32.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:32.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:32.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:32.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:32.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:32.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:32.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:32.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:32.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:32.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:32.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:32.423][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-10-12 21:32:32.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-10-12 21:32:32.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-10-12 21:32:32.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-10-12 21:32:32.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-10-12 21:32:32.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-10-12 21:32:32.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-10-12 21:32:32.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-12 21:32:32.446][biodb::testThat]
biodb.INFO [2025-10-12 21:32:32.447][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-10-12 21:32:32.448][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:32.449][biodb::testThat]
biodb.TRACE[2025-10-12 21:32:32.453][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:32.454][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:32.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.456][ef$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:32.458][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-10-12 21:32:32.487][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:32.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:32.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.492][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:32.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:32.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.496][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:32.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:32.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:32.510][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-10-12 21:32:32.516][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-12 21:32:32.540][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:32.548][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-12 21:32:32.549][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-12 21:32:32.572][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:32.612][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:32.622][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-12 21:32:32.623][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:32.630][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-10-12 21:32:32.659][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:32.660][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:32.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.663][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.667][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:32.669][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:32.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.675][ef$get] fields variable is a list.
biodb.INFO [2025-10-12 21:32:32.682][biodb::testThat]
biodb.INFO [2025-10-12 21:32:32.684][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-10-12 21:32:32.689][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:32.691][biodb::testThat]
biodb.TRACE[2025-10-12 21:32:32.723][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:32.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:32.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.728][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:32.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:32.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.733][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:32.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:32.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-12 21:32:32.872][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:32.875][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:32.880][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-12 21:32:32.881][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-12 21:32:32.899][biodb::testThat]
biodb.INFO [2025-10-12 21:32:32.900][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-10-12 21:32:32.901][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:32.903][biodb::testThat]
biodb.TRACE[2025-10-12 21:32:32.926][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:32.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:32.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.931][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:32.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:32.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.935][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:32.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:32.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.940][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:32.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:32.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:32.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:32.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:32.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:32.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.953][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-12 21:32:32.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-12 21:32:32.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.958][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-12 21:32:32.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-12 21:32:32.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.963][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-12 21:32:32.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-12 21:32:32.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.967][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-12 21:32:32.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-12 21:32:32.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.993][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:32.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:32.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:32.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:32.997][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:32.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:33.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:33.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:33.002][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:33.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:33.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:33.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:33.007][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:33.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:33.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:33.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:33.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:33.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:33.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:33.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:33.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:33.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:33.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:33.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:33.028][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-12 21:32:33.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-12 21:32:33.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:33.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:33.033][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-12 21:32:33.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-12 21:32:33.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:33.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:33.037][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-12 21:32:33.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-12 21:32:33.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:33.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:33.041][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-12 21:32:33.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-12 21:32:33.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:33.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-12 21:32:33.052][biodb::testThat]
biodb.INFO [2025-10-12 21:32:33.053][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-10-12 21:32:33.054][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:33.055][biodb::testThat]
biodb.INFO [2025-10-12 21:32:33.064][biodb::testThat]
biodb.INFO [2025-10-12 21:32:33.065][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-10-12 21:32:33.066][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:33.067][biodb::testThat]
biodb.INFO [2025-10-12 21:32:33.075][biodb::testThat]
biodb.INFO [2025-10-12 21:32:33.076][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-10-12 21:32:33.078][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:33.079][biodb::testThat]
biodb.DEBUG[2025-10-12 21:32:33.083][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-10-12 21:32:33.756][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-10-12 21:32:34.139][biodb::testThat]
biodb.INFO [2025-10-12 21:32:34.140][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-10-12 21:32:34.153][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:34.154][biodb::testThat]
biodb.TRACE[2025-10-12 21:32:34.172][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:34.177][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:34.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.179][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:34.182][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:34.183][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:34.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.193][ef$get] fields variable is a list.
biodb.INFO [2025-10-12 21:32:34.195][biodb::testThat]
biodb.INFO [2025-10-12 21:32:34.196][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-10-12 21:32:34.197][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:34.198][biodb::testThat]
biodb.TRACE[2025-10-12 21:32:34.225][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:34.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:34.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:34.232][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:34.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:34.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:34.241][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:34.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:34.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-12 21:32:34.423][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:34.430][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:34.436][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-12 21:32:34.437][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-12 21:32:34.618][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 [2025-10-12 21:32:34.632][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:34.646][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-12 21:32:34.647][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-12 21:32:34.683][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-12 21:32:34.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-12 21:32:34.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:34.702][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:34.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:34.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:34.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:34.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:34.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:34.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:34.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:34.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:34.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:34.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:34.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:34.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:34.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:34.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-12 21:32:34.758][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:34.764][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:34.770][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-12 21:32:34.771][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:34.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:34.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:34.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:34.793][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:34.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:34.795][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:34.796][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[2025-10-12 21:32:34.797][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-10-12 21:32:34.861][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:34.863][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:34.870][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-10-12 21:32:34.874][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:34.876][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:34.880][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:34.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:34.885][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:34.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:34.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:34.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:34.897][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:34.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:34.904][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:34.906][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:34.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.908][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:34.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:34.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:34.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:34.924][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:34.925][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:34.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.927][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:34.928][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:34.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:34.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:34.939][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:34.940][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:34.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.945][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:34.947][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:34.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:34.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:34.957][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:34.959][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:34.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.967][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:34.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:34.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:34.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:34.984][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:34.985][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:34.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.987][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:34.988][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:34.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:34.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:34.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:34.996][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:35.011][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:35.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.015][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.017][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:35.018][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.020][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.025][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:35.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.032][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:35.033][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:35.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.035][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:35.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:35.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.042][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:35.043][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:35.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.046][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.048][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:35.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:35.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.053][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:35.054][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:35.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.056][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.058][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:35.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:35.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.062][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:35.064][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:35.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.066][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.067][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:35.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:35.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:35.117][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-10-12 21:32:35.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.133][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-12 21:32:35.143][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:35.146][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:35.151][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-12 21:32:35.152][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:35.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:35.172][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:35.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:35.178][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:35.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:35.180][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:35.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:35.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:35.196][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:35.197][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:35.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:35.209][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:35.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:35.211][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:35.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:35.213][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-10-12 21:32:35.215][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:35.216][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:35.224][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-10-12 21:32:35.228][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:35.229][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:35.230][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:35.234][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:35.235][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:35.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:35.249][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:35.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:35.251][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:35.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:35.260][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.261][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.263][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.269][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:35.270][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:35.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.273][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.274][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:35.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:35.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.279][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:35.280][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:35.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.282][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.284][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:35.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:35.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.288][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:35.290][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:35.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.292][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.293][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:35.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:35.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.298][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:35.299][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:35.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.301][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:35.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:35.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.307][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:35.308][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:35.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.310][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.312][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:35.313][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.315][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.316][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:35.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.321][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:35.322][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:35.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.324][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:35.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:35.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.330][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:35.331][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:35.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.333][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.335][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:35.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:35.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.340][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:35.341][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:35.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.343][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.344][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:35.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:35.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.349][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:35.350][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:35.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.352][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.353][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:35.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:35.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:35.403][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-10-12 21:32:35.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.409][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.419][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-12 21:32:35.441][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:35.444][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:35.448][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-12 21:32:35.449][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:35.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:35.454][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:35.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:35.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:35.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:35.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:35.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:35.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:35.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:35.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:35.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:35.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:35.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:35.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:35.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:35.488][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-10-12 21:32:35.490][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:35.491][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:35.496][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-10-12 21:32:35.501][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:35.502][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:35.504][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:35.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:35.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:35.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:35.525][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:35.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:35.527][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:35.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:35.534][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.540][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.542][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.552][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:35.556][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:35.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.558][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.562][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:35.563][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:35.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.569][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.571][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:35.576][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:35.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.578][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.584][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:35.585][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:35.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.591][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.592][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:35.594][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:35.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.596][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.597][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:35.598][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.600][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.602][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:35.603][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:35.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.605][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.606][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:35.608][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:35.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.610][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.611][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:35.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:35.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.616][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:35.617][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:35.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.619][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.621][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:35.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:35.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.625][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:35.626][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:35.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.628][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.630][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:35.696][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-10-12 21:32:35.699][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.743][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:35.755][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:35.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:35.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:35.777][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:35.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:35.784][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:35.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:35.786][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-10-12 21:32:35.793][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:35.795][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:35.815][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-10-12 21:32:35.816][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:35.817][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:35.818][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:35.827][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:35.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:35.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:35.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:35.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:35.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:35.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:35.864][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.865][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.867][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:35.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:35.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.873][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:35.874][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:35.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.876][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.878][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:35.879][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:35.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.881][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.886][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:35.891][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:35.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.897][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.898][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:35.899][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:35.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.905][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.907][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:35.908][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:35.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.914][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.916][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:35.917][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:35.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.921][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.922][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:35.923][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:35.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.926][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.927][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:35.932][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:35.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.934][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.940][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:35.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:35.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.949][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:35.951][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:35.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.954][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.955][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:35.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:35.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.966][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:35.967][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:35.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.972][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:35.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:35.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:35.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:36.081][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-10-12 21:32:36.082][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:36.105][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:36.106][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:36.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:36.112][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:36.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:36.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:36.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:36.116][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-10-12 21:32:36.117][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:36.119][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:36.127][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-10-12 21:32:36.130][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:36.131][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:36.133][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:36.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:36.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:36.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:36.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:36.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:36.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:36.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:36.157][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.162][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.164][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.172][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:36.173][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:36.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.179][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.185][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:36.186][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:36.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.191][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.193][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:36.194][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:36.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.196][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.197][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:36.203][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:36.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.209][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.210][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:36.211][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:36.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.213][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.222][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:36.223][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.225][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.233][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:36.234][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:36.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.245][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.246][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:36.249][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:36.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.251][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.254][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:36.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:36.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.263][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:36.264][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:36.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.267][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.269][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:36.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:36.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.275][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:36.284][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:36.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.293][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.330][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:36.417][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-10-12 21:32:36.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.438][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:36.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:36.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:36.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:36.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:36.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:36.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:36.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:36.458][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-10-12 21:32:36.459][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:36.461][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:36.467][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-10-12 21:32:36.469][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:36.470][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:36.471][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:36.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:36.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:36.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:36.481][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:36.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:36.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:36.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:36.487][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.488][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.490][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.496][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:36.497][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:36.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.499][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.501][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:36.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:36.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.505][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:36.507][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:36.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.509][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.510][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:36.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:36.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.515][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:36.516][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:36.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.518][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.520][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:36.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:36.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.524][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:36.526][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:36.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.528][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.529][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:36.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:36.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.534][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:36.535][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:36.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.537][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.539][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:36.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:36.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.543][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:36.545][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.547][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.548][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:36.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.553][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:36.554][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:36.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.556][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:36.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:36.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.562][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:36.563][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:36.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.566][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.567][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:36.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:36.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.572][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:36.573][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:36.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.576][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.577][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:36.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:36.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.582][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:36.583][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:36.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.585][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.586][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:36.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:36.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:36.643][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-10-12 21:32:36.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.653][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:36.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:36.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:36.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:36.665][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:36.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:36.667][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:36.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:36.669][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-10-12 21:32:36.670][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:36.672][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:36.678][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-10-12 21:32:36.679][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:36.681][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:36.682][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:36.684][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:36.685][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:36.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:36.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:36.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:36.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:36.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:36.697][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.698][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.700][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.706][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:36.708][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:36.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.710][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.711][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:36.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:36.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.716][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:36.717][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:36.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.719][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.721][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:36.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:36.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.726][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:36.727][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:36.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.729][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.730][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:36.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:36.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.735][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:36.736][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:36.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.738][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:36.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:36.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.744][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:36.746][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:36.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.748][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.749][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:36.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:36.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.754][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:36.755][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.757][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.759][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:36.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.763][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:36.764][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:36.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.767][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:36.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:36.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.773][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:36.774][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:36.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.776][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.778][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:36.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:36.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.782][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:36.783][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:36.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.786][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.787][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:36.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:36.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.792][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:36.793][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:36.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.795][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.796][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:36.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:36.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:36.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:36.852][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-10-12 21:32:36.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.858][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:36.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:36.868][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:36.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:36.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:36.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:36.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:36.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:36.878][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-10-12 21:32:36.880][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:36.881][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:36.889][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-10-12 21:32:36.891][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:36.892][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:36.893][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:36.895][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:36.896][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:36.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:36.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:36.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:36.904][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:36.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:36.908][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.910][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.912][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:36.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:36.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.918][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:36.919][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:36.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.921][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.923][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:36.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:36.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.927][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:36.928][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:36.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.930][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.932][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:36.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:36.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.937][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:36.938][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:36.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.940][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.941][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:36.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:36.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.946][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:36.947][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:36.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.949][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.951][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:36.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:36.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.955][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:36.956][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:36.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.959][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.960][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:36.961][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.963][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.965][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:36.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:36.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.969][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:36.971][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:36.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.973][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:36.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:36.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.979][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:36.980][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:36.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.982][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.984][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:36.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:36.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.988][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:36.990][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:36.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:36.998][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:36.999][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:37.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:37.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.004][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:37.005][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:37.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.007][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.008][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:37.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:37.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:37.058][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-10-12 21:32:37.059][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.064][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:37.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:37.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:37.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:37.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:37.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:37.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:37.083][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[2025-10-12 21:32:37.084][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-10-12 21:32:37.085][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:37.087][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:37.100][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-10-12 21:32:37.101][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:37.102][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:37.104][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:37.106][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:37.107][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:37.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:37.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:37.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:37.116][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:37.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:37.120][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.121][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.123][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.129][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:37.130][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:37.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.132][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.134][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:37.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:37.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.138][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:37.140][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:37.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.142][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.143][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:37.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:37.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.148][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:37.149][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:37.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.151][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.153][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:37.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:37.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.157][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:37.158][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:37.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.161][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.162][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:37.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:37.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.167][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:37.168][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:37.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.170][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.171][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:37.173][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.175][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.176][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:37.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.181][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:37.182][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:37.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.184][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:37.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:37.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.196][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:37.197][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:37.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.199][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.201][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:37.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:37.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.206][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:37.207][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:37.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.209][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.210][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:37.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:37.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.215][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:37.216][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:37.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.218][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.219][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:37.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:37.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:37.269][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-10-12 21:32:37.271][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.280][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:37.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:37.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:37.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:37.291][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:37.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:37.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:37.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:37.296][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-10-12 21:32:37.297][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:37.298][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:37.306][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-10-12 21:32:37.310][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:37.312][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:37.313][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:37.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:37.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:37.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:37.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:37.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:37.324][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:37.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:37.328][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.329][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.331][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.337][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:37.338][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:37.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.340][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.342][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:37.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:37.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.346][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:37.348][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:37.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.350][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.351][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:37.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:37.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.356][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:37.357][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:37.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.359][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.361][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:37.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:37.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.365][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:37.366][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:37.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.369][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.370][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:37.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:37.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.375][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:37.376][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:37.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.378][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.379][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:37.381][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.389][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.390][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:37.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.395][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:37.396][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:37.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.398][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:37.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:37.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.404][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:37.405][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:37.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.407][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.409][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:37.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:37.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.414][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:37.415][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:37.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.417][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.418][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:37.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:37.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.423][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:37.424][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:37.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.426][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.428][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:37.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:37.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.446][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:37.478][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-10-12 21:32:37.480][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.489][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:37.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:37.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:37.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:37.500][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:37.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:37.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:37.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:37.505][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-10-12 21:32:37.506][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:37.508][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:37.519][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-10-12 21:32:37.521][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:37.522][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:37.524][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:37.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:37.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:37.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:37.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:37.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:37.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:37.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:37.538][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.540][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.542][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.548][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:37.549][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:37.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.551][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.553][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:37.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:37.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.558][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:37.559][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:37.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.561][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.563][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:37.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:37.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.567][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:37.569][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:37.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.571][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.572][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:37.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:37.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.577][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:37.578][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:37.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.587][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.588][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:37.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:37.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.593][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:37.594][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:37.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.604][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.606][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:37.608][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.610][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.612][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:37.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.617][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:37.619][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:37.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.621][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:37.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:37.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.629][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:37.630][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:37.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.633][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.634][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:37.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:37.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.640][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:37.641][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:37.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.644][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.645][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:37.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:37.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.650][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:37.652][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:37.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.654][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.656][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:37.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:37.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:37.716][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-10-12 21:32:37.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:37.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:37.734][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:37.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:37.742][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:37.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:37.745][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:37.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:37.747][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-10-12 21:32:37.749][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:37.751][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:37.760][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-10-12 21:32:37.761][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:37.763][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:37.764][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:37.767][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:37.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:37.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:37.776][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:37.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:37.778][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:37.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:37.783][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.784][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.786][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.793][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:37.794][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:37.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.797][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.798][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:37.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:37.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.804][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:37.805][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:37.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.807][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.809][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:37.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:37.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.828][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:37.830][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:37.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.833][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.834][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:37.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:37.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.839][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:37.840][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:37.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.843][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.844][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:37.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:37.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.849][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:37.850][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:37.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.852][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.853][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:37.855][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.857][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.858][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:37.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.863][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:37.864][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:37.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.866][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:37.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:37.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.872][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:37.874][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:37.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.877][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.878][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:37.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:37.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.883][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:37.884][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:37.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.886][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.888][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:37.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:37.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.893][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:37.894][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:37.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.896][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.897][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:37.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:37.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:37.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:37.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:37.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:37.949][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-10-12 21:32:37.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:37.959][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:37.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:37.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:37.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:37.964][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:37.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:37.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:37.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:37.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:37.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:37.975][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-10-12 21:32:37.976][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:37.978][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:37.984][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-10-12 21:32:37.985][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:37.990][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:37.992][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:37.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:37.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:37.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:38.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:38.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:38.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:38.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:38.019][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.021][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.024][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.032][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:38.062][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:38.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.065][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.067][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:38.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:38.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.072][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:38.073][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:38.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.075][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.077][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:38.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:38.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.082][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:38.083][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:38.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.086][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.087][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:38.088][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:38.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.090][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.092][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:38.093][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:38.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.095][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.097][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:38.098][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.100][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.102][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:38.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.107][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:38.108][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:38.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.111][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:38.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:38.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.117][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:38.118][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:38.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.120][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.122][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:38.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:38.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.126][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:38.127][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:38.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.130][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.131][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:38.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:38.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.136][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:38.137][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:38.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.139][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:38.186][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-10-12 21:32:38.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.196][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:38.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:38.202][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:38.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:38.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:38.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:38.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:38.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:38.212][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-10-12 21:32:38.214][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:38.215][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:38.222][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-10-12 21:32:38.223][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:38.224][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:38.226][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:38.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:38.228][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:38.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:38.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:38.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:38.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:38.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:38.241][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.242][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.244][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.250][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:38.252][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:38.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.259][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.261][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:38.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:38.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.266][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:38.267][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:38.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.269][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.271][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:38.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:38.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.275][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:38.276][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:38.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.279][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.280][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:38.281][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:38.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.283][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.285][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:38.286][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:38.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.288][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.289][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:38.291][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.293][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.294][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:38.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.299][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:38.300][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:38.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.302][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.304][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:38.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:38.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.308][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:38.309][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:38.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.311][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.313][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:38.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:38.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.318][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:38.319][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:38.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.321][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.322][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:38.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:38.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.327][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:38.328][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:38.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.330][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.346][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:38.377][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-10-12 21:32:38.378][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.387][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:38.392][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:38.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:38.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:38.399][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:38.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:38.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:38.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:38.404][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-10-12 21:32:38.405][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:38.406][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:38.415][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-10-12 21:32:38.416][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:38.421][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:38.422][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:38.424][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:38.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:38.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:38.432][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:38.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:38.434][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:38.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:38.438][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.439][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.442][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.448][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:38.449][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:38.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.452][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.453][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:38.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:38.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.464][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:38.466][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:38.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.468][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.469][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:38.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:38.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.474][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:38.475][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:38.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.477][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.479][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:38.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:38.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.483][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:38.484][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:38.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.487][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.488][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:38.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:38.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.493][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:38.494][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:38.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.497][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.499][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:38.500][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.503][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.505][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:38.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.511][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:38.513][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:38.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.515][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:38.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:38.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.522][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:38.523][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:38.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.526][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.528][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:38.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:38.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.533][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:38.534][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:38.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.537][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.539][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:38.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:38.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.544][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:38.546][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:38.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.548][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.549][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:38.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:38.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:38.611][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-10-12 21:32:38.613][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.626][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:38.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:38.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:38.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:38.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:38.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:38.645][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:38.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:38.648][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-10-12 21:32:38.650][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:38.652][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:38.662][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-10-12 21:32:38.664][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:38.666][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:38.668][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:38.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:38.672][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:38.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:38.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:38.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:38.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:38.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:38.688][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.689][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.698][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.707][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:38.708][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:38.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.711][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.713][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:38.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:38.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.719][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:38.721][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:38.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.723][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.725][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:38.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:38.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.731][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:38.733][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:38.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.735][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.737][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:38.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:38.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.743][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:38.745][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:38.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.747][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.749][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:38.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:38.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.755][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:38.757][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:38.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.759][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.761][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:38.763][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.766][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.767][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:38.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.774][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:38.775][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:38.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.778][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:38.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:38.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.786][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:38.788][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:38.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.791][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.793][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:38.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:38.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.799][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:38.800][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:38.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.803][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.805][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:38.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:38.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.811][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:38.813][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:38.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.815][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.818][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:38.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:38.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:38.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:38.883][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-10-12 21:32:38.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:38.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:38.899][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:38.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:38.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:38.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:38.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:38.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:38.910][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-10-12 21:32:38.911][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:38.913][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:38.918][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-10-12 21:32:38.919][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:38.920][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:38.921][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:38.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:38.924][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:38.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:38.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:38.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:38.940][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:38.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:38.943][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.944][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.947][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:38.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:38.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.953][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:38.954][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:38.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.956][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.958][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:38.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:38.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.962][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:38.964][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:38.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.966][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.967][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:38.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:38.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.972][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:38.973][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:38.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.975][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.977][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:38.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:38.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.981][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:38.983][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:38.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.985][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.986][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:38.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:38.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.991][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:38.992][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:38.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.994][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:38.996][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:38.997][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:38.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:38.999][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.001][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:39.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.005][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.007][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.009][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.019][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:39.023][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:39.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.025][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.030][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:39.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:39.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.039][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:39.040][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:39.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.044][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.047][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:39.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:39.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.052][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:39.054][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:39.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.056][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.058][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:39.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:39.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:39.116][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-10-12 21:32:39.117][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.122][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:39.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:39.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:39.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:39.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:39.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:39.144][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:39.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:39.155][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-10-12 21:32:39.156][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:39.158][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:39.163][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-10-12 21:32:39.164][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:39.166][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:39.167][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:39.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:39.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:39.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:39.176][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:39.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:39.178][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:39.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:39.183][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.184][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.186][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.192][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:39.193][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:39.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.196][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.197][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:39.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:39.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.202][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:39.203][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:39.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.205][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.207][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:39.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:39.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.212][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:39.213][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:39.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.215][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.216][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:39.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:39.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.221][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:39.222][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:39.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.225][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.226][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:39.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:39.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.235][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:39.236][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:39.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.238][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.240][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:39.241][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.244][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.246][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:39.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.251][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.252][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.254][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.256][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.260][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:39.261][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:39.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.263][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.265][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:39.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:39.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.270][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:39.271][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:39.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.273][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.275][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:39.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:39.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.279][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:39.281][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:39.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.283][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.284][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:39.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:39.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:39.335][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-10-12 21:32:39.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.340][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:39.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:39.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:39.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:39.371][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:39.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:39.373][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:39.374][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[2025-10-12 21:32:39.376][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-10-12 21:32:39.377][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:39.379][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:39.387][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-10-12 21:32:39.392][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:39.393][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:39.394][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:39.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:39.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:39.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:39.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:39.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:39.422][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:39.423][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.TRACE[2025-10-12 21:32:39.425][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.427][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.429][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.435][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:39.436][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:39.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.438][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.440][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:39.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:39.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.444][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:39.446][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:39.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.448][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.449][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:39.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:39.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.454][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:39.455][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:39.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.457][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.459][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:39.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:39.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.463][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:39.465][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:39.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.467][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.468][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:39.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:39.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.473][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:39.474][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:39.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.476][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.478][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:39.479][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.481][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.482][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:39.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.487][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.488][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.490][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.496][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:39.498][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:39.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.500][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.501][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:39.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:39.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.506][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:39.507][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:39.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.509][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.511][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:39.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:39.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.515][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:39.517][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:39.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.519][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.520][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:39.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:39.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:39.577][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-10-12 21:32:39.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:39.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:39.593][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:39.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:39.599][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:39.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:39.602][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:39.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:39.604][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-10-12 21:32:39.605][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:39.607][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:39.613][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-10-12 21:32:39.615][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:39.617][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:39.618][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:39.623][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:39.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:39.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:39.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:39.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:39.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:39.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:39.636][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.637][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.639][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.645][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:39.647][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:39.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.649][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.650][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:39.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:39.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.655][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:39.656][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:39.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.658][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.660][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:39.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:39.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.665][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:39.666][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:39.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.668][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.670][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:39.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:39.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.675][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:39.676][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:39.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.679][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.680][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:39.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:39.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.685][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:39.686][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:39.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.688][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.690][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:39.691][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.693][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.694][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:39.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.699][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.700][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.702][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.709][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:39.710][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:39.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.712][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.714][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:39.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:39.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.718][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:39.720][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:39.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.722][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.723][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:39.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:39.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.728][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:39.729][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:39.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.731][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.733][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:39.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:39.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:39.791][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-10-12 21:32:39.792][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.797][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:39.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:39.807][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:39.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:39.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:39.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:39.817][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:39.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:39.819][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-10-12 21:32:39.821][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:39.822][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:39.826][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-10-12 21:32:39.828][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:39.829][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:39.830][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:39.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:39.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:39.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:39.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:39.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:39.842][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:39.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:39.845][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.847][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.849][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.856][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:39.857][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:39.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.860][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.862][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:39.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:39.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.866][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:39.868][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:39.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.870][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.871][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:39.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:39.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.876][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:39.877][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:39.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.879][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.881][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:39.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:39.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.885][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:39.887][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:39.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.889][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.890][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:39.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:39.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.895][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:39.896][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:39.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.898][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.900][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:39.901][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.903][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.905][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:39.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:39.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.910][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.911][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.913][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:39.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.919][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:39.920][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:39.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.923][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.924][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:39.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:39.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.930][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:39.931][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:39.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.933][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.935][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:39.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:39.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.939][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:39.941][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:39.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.943][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.944][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:39.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:39.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:39.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:39.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:39.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:39.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:39.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:40.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.002][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-10-12 21:32:40.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-12 21:32:40.038][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:40.041][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:40.046][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-12 21:32:40.047][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:40.050][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.062][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.086][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.088][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.093][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.119][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.123][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.148][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.154][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.158][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.184][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.200][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.221][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.234][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.241][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.249][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.273][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.274][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.288][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.295][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.301][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.314][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.316][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.319][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.323][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.333][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.334][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.340][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.358][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.365][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.386][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.390][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.391][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.415][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.416][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.422][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.424][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.440][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.441][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.447][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.449][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.461][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.472][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.477][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.490][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.491][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.498][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.500][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.516][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.517][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.525][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.541][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.550][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.593][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.598][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.599][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-12 21:32:40.692][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:40.695][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:40.698][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-10-12 21:32:40.699][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-12 21:32:40.703][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:40.706][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:40.710][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-10-12 21:32:40.712][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:40.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.724][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:40.727][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-10-12 21:32:40.728][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:40.730][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:40.741][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-10-12 21:32:40.742][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:40.747][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:40.748][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:40.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:40.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:40.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:40.801][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:40.802][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:40.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.808][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:40.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:40.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.821][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:40.823][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:40.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.829][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.830][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:40.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:40.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.835][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:40.836][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:40.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.838][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.840][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:40.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:40.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.845][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:40.846][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:40.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.848][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.850][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:40.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:40.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.854][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:40.856][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:40.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.858][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.859][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:40.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:40.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.864][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:40.865][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:40.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.867][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.869][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:40.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:40.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.873][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:40.875][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.877][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.878][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:40.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:40.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.883][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.884][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.886][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.893][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:40.894][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:40.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.896][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.898][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:40.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:40.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.902][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:40.903][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:40.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.906][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.907][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:40.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:40.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.912][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:40.913][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:40.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.915][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.917][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:40.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:40.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.921][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:40.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:40.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:40.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:40.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:40.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:40.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:40.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:40.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:40.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:40.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:40.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:40.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:40.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:40.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:40.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:40.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:40.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:40.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:40.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:40.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.968][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-10-12 21:32:40.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:40.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:40.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:40.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:40.983][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:40.984][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:40.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:40.998][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:40.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:41.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:41.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:41.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:41.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:41.017][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:41.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:41.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:41.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:41.026][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:41.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:41.028][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-10-12 21:32:41.029][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:41.031][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:41.039][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-10-12 21:32:41.044][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:41.046][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:41.047][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:41.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:41.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:41.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:41.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:41.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:41.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:41.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:41.071][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:41.073][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:41.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.078][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:41.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:41.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.092][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:41.096][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:41.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.098][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.104][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:41.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:41.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.113][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:41.118][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:41.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.120][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.122][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:41.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:41.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.130][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:41.136][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:41.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.141][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.142][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:41.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:41.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.151][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:41.156][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:41.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.158][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:41.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:41.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.164][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:41.166][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:41.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.168][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.169][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:41.170][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:41.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.173][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.174][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:41.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:41.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.179][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.180][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.182][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.188][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:41.189][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:41.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.192][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.193][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:41.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:41.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.198][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:41.199][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:41.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.201][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.203][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:41.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:41.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.207][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:41.209][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:41.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.211][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.212][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:41.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:41.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:41.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:41.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:41.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:41.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:41.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:41.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:41.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:41.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:41.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:41.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:41.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:41.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:41.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:41.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:41.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:41.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:41.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:41.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:41.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:41.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:41.272][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-10-12 21:32:41.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-12 21:32:41.319][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:41.322][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:41.334][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-12 21:32:41.336][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:41.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:41.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:41.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:41.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:41.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:41.367][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:41.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:41.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:41.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:41.399][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:41.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:41.408][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:41.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:41.410][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:41.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:41.416][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:41.470][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:41.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:41.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:41.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:41.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:41.488][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:41.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:41.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.499][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.525][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:41.534][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:41.539][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:41.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:41.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:41.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:41.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:41.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:41.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:41.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:41.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:41.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:41.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:41.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:41.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:41.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:41.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:41.652][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:41.653][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:41.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:41.658][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:41.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:41.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:41.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:41.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:41.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:41.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:41.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:41.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:41.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:41.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:41.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:41.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:41.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:41.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:41.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:41.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:41.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:41.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:41.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:41.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:41.740][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:41.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:41.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:41.750][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:41.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:41.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:41.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:41.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:41.774][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:41.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:41.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:41.784][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:41.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:41.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:41.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:41.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:41.809][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:41.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:41.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:41.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:41.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:41.833][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:41.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:41.839][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:41.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:41.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:41.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:41.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:41.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:41.873][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:41.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:41.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:41.889][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:41.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:41.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:41.896][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:41.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:41.898][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:41.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:41.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:41.914][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:41.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:41.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:41.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:41.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:41.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:41.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:41.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:41.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:41.956][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:41.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:41.967][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:41.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:41.971][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:41.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:41.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:41.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:41.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:41.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.014][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.038][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.040][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.056][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.057][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.093][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.102][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.118][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.126][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-12 21:32:42.153][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:42.156][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:42.160][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-12 21:32:42.161][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:42.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.187][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.188][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.194][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.222][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.262][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.264][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.270][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.272][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.283][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.304][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.317][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.322][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.328][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.379][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.382][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.398][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.399][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.409][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.414][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.423][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.424][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.462][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.464][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.471][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.480][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.481][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.501][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.506][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.507][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.513][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.515][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.531][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.582][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.588][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.590][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.592][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.672][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.674][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.715][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.719][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.722][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:42.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.763][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-12 21:32:42.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-12 21:32:42.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-12 21:32:42.780][biodb::testThat]
biodb.INFO [2025-10-12 21:32:42.782][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-10-12 21:32:42.783][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:42.785][biodb::testThat]
biodb.TRACE[2025-10-12 21:32:42.789][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-12 21:32:42.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-12 21:32:42.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-12 21:32:42.834][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:42.837][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:42.839][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-12 21:32:42.841][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:42.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.845][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.875][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-12 21:32:42.880][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:42.883][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:42.886][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-12 21:32:42.887][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:42.889][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.896][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.898][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.931][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:42.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:42.941][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-12 21:32:42.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:42.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:42.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:42.950][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:42.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:42.952][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:42.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:42.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:42.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:42.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:42.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:42.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.964][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:42.965][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-12 21:32:42.966][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-12 21:32:42.967][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-12 21:32:42.968][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:42.970][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:42.971][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:42.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.973][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.974][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:42.975][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:42.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.977][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.979][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:42.980][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:42.981][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:42.982][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:42.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.984][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.985][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-12 21:32:42.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:42.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:42.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:42.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:42.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:42.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:42.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:42.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:42.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.012][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-12 21:32:43.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:43.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:43.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:43.027][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:43.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:43.029][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:43.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:43.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.053][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.058][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-12 21:32:43.059][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-12 21:32:43.060][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-12 21:32:43.061][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.066][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.068][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.070][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.071][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.076][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.078][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.083][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.085][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.086][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.101][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.106][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.111][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-12 21:32:43.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.129][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.138][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-12 21:32:43.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:43.145][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:43.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:43.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:43.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:43.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:43.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:43.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.180][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.181][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-12 21:32:43.183][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-12 21:32:43.184][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-12 21:32:43.185][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.186][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.187][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.189][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.190][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.191][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.194][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.195][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.196][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.197][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.198][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.200][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.201][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-12 21:32:43.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.216][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-12 21:32:43.218][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-12 21:32:43.219][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-12 21:32:43.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:43.424][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:43.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:43.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:43.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:43.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:43.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:43.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-12 21:32:43.437][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:43.440][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:43.443][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-12 21:32:43.444][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-12 21:32:43.451][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:43.454][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:43.458][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-12 21:32:43.463][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:43.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:43.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:43.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:43.475][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:43.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:43.477][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:43.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:43.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.484][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:43.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:43.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:43.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:43.500][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:43.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:43.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:43.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:43.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:43.519][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:43.520][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:43.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:43.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:43.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:43.528][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:43.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:43.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:43.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:43.572][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-12 21:32:43.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:43.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:43.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:43.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:43.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:43.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:43.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:43.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.660][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.661][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-12 21:32:43.662][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-12 21:32:43.663][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-12 21:32:43.666][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.667][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.669][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.675][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.676][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.677][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.679][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.682][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.683][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.684][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.689][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.692][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.697][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-12 21:32:43.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.733][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-12 21:32:43.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:43.737][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:43.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:43.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:43.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:43.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:43.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:43.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.832][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.833][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-12 21:32:43.835][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-12 21:32:43.836][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-12 21:32:43.837][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.838][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.839][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.841][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.843][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.844][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.846][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.847][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.861][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.862][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.863][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.865][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.867][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-12 21:32:43.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.891][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-12 21:32:43.892][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:43.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:43.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:43.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:43.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:43.902][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:43.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:43.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.913][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.914][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-12 21:32:43.915][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-12 21:32:43.917][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-12 21:32:43.918][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.919][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.920][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.922][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.924][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.925][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.927][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.928][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.929][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:43.930][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.932][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.934][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.935][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-12 21:32:43.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:43.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.951][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-12 21:32:43.952][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-12 21:32:43.953][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-12 21:32:43.964][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-12 21:32:43.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-12 21:32:43.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-12 21:32:43.974][biodb::testThat]
biodb.INFO [2025-10-12 21:32:43.975][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-10-12 21:32:43.976][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:43.977][biodb::testThat]
biodb.TRACE[2025-10-12 21:32:43.981][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-12 21:32:43.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-12 21:32:43.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.986][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:43.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:43.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:43.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:43.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:43.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:43.996][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:43.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:43.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:44.015][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:44.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:44.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:44.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:44.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:44.030][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:44.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-12 21:32:44.036][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:44.039][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:44.045][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-12 21:32:44.046][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:44.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:44.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:44.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:44.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:44.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:44.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:44.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:44.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-12 21:32:44.093][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:44.095][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:44.103][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-12 21:32:44.104][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:44.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:44.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:44.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:44.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:44.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:44.164][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:44.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:44.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:44.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:44.212][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:44.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:44.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:44.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:44.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:44.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:44.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.234][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:44.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:44.257][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-12 21:32:44.266][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:44.267][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:44.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:44.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:44.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:44.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:44.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:44.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.303][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.306][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-12 21:32:44.307][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-12 21:32:44.308][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-12 21:32:44.309][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.310][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.311][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.318][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.323][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.324][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.328][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.329][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.330][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.335][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.337][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.339][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.340][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-12 21:32:44.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.380][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-12 21:32:44.381][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:44.382][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:44.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:44.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:44.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:44.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:44.402][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[2025-10-12 21:32:44.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.412][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.413][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-12 21:32:44.414][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-12 21:32:44.415][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-12 21:32:44.416][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.418][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.419][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.421][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.422][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.423][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.425][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.427][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.432][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.433][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.440][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.442][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.443][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-12 21:32:44.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.472][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-12 21:32:44.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:44.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:44.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:44.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:44.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:44.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:44.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:44.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.537][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.538][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-12 21:32:44.539][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-12 21:32:44.542][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-12 21:32:44.543][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.544][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.545][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.547][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.549][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.554][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.560][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.561][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.562][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.570][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.571][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.579][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.580][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-12 21:32:44.581][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.605][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-12 21:32:44.606][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-12 21:32:44.607][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-12 21:32:44.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.629][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.633][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:44.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:44.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:44.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:44.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:44.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:44.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:44.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-12 21:32:44.654][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:44.656][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:44.662][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-12 21:32:44.664][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-12 21:32:44.674][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:44.677][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:44.683][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-12 21:32:44.684][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:44.690][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:44.691][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:44.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:44.704][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:44.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:44.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:44.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:44.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:44.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:44.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:44.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:44.780][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:44.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:44.783][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:44.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:44.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:44.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:44.800][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:44.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:44.807][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:44.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:44.809][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:44.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:44.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.827][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:44.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:44.833][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-12 21:32:44.835][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:44.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:44.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:44.842][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:44.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:44.844][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:44.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:44.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.856][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.857][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-12 21:32:44.858][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-12 21:32:44.859][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-12 21:32:44.860][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.861][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.863][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.865][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.866][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.867][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.869][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.871][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.872][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.873][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.874][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.876][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.877][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-12 21:32:44.878][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.893][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-12 21:32:44.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:44.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:44.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:44.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:44.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:44.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:44.904][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[2025-10-12 21:32:44.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.910][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.915][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.916][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-12 21:32:44.917][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-12 21:32:44.918][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-12 21:32:44.919][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.920][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.921][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.924][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.925][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.926][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.928][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.929][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.930][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.931][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.933][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.935][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.936][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-12 21:32:44.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.951][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-12 21:32:44.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:44.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:44.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:44.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:44.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:44.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:44.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:44.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.973][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.975][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-12 21:32:44.976][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-12 21:32:44.977][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-12 21:32:44.978][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.979][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.980][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.982][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.983][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.985][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.987][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.988][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.989][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:44.990][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.991][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.994][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:44.995][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-12 21:32:44.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:44.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:44.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.017][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-12 21:32:45.018][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-12 21:32:45.019][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-12 21:32:45.029][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-12 21:32:45.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-12 21:32:45.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-12 21:32:45.037][biodb::testThat]
biodb.INFO [2025-10-12 21:32:45.038][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-10-12 21:32:45.039][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:45.040][biodb::testThat]
biodb.TRACE[2025-10-12 21:32:45.043][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-12 21:32:45.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-12 21:32:45.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.048][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.062][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:45.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:45.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:45.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:45.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:45.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:45.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:45.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-12 21:32:45.085][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:45.088][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:45.090][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-12 21:32:45.091][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:45.094][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:45.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:45.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:45.101][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:45.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:45.104][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:45.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:45.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-12 21:32:45.121][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:45.124][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:45.127][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-12 21:32:45.128][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:45.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:45.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:45.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:45.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:45.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:45.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:45.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:45.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.157][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:45.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:45.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:45.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:45.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:45.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:45.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:45.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:45.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:45.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:45.190][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-12 21:32:45.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:45.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:45.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:45.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:45.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:45.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:45.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:45.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.222][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.223][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-12 21:32:45.224][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-12 21:32:45.225][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-12 21:32:45.226][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.227][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.228][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.230][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.232][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.233][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.235][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.236][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.237][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.238][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.240][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.242][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.243][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-12 21:32:45.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.258][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-12 21:32:45.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:45.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:45.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:45.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:45.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:45.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:45.270][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.TRACE[2025-10-12 21:32:45.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.281][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.282][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-12 21:32:45.283][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-12 21:32:45.284][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-12 21:32:45.285][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.286][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.288][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.290][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.291][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.292][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.294][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.295][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.297][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.298][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.299][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.301][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.302][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-12 21:32:45.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.318][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-12 21:32:45.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:45.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:45.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:45.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:45.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:45.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:45.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:45.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.341][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.342][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-12 21:32:45.343][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-12 21:32:45.344][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-12 21:32:45.345][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.347][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.348][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.350][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.351][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.352][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.359][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.360][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.367][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.368][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.369][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.379][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.380][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-12 21:32:45.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.405][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-12 21:32:45.406][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-12 21:32:45.411][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-12 21:32:45.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:45.499][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:45.500][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:45.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:45.513][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:45.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:45.515][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:45.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-12 21:32:45.523][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:45.529][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:45.531][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-12 21:32:45.532][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-12 21:32:45.540][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:45.544][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:45.547][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-12 21:32:45.548][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:45.551][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:45.552][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:45.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:45.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:45.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:45.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:45.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:45.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:45.593][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:45.594][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:45.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:45.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:45.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:45.609][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:45.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:45.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:45.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:45.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:45.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:45.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:45.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:45.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:45.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:45.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.680][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:45.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:45.688][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-12 21:32:45.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:45.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:45.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:45.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:45.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:45.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:45.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:45.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.728][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.729][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-12 21:32:45.734][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-12 21:32:45.735][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-12 21:32:45.736][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.739][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.744][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.747][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.748][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.749][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.751][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.759][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.760][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.766][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.767][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.771][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.772][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-12 21:32:45.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.799][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-12 21:32:45.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:45.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:45.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:45.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:45.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:45.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:45.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:45.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.840][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.841][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-12 21:32:45.845][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-12 21:32:45.846][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-12 21:32:45.847][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.848][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.853][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.856][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.861][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.862][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.870][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.871][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.876][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.877][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.879][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.885][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.890][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-12 21:32:45.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.924][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-12 21:32:45.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:45.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:45.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:45.940][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:45.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:45.942][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:45.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:45.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.958][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.959][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-12 21:32:45.960][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-12 21:32:45.961][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-12 21:32:45.966][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.967][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.968][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.974][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.976][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.979][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.982][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.987][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.988][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-12 21:32:45.989][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.990][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:45.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:45.996][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:45.997][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-12 21:32:46.003][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.033][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-12 21:32:46.034][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-12 21:32:46.036][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-12 21:32:46.072][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-12 21:32:46.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-12 21:32:46.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-12 21:32:46.087][biodb::testThat]
biodb.INFO [2025-10-12 21:32:46.088][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-10-12 21:32:46.089][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:46.091][biodb::testThat]
biodb.DEBUG[2025-10-12 21:32:46.118][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-10-12 21:32:46.119][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:46.126][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:46.132][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-10-12 21:32:46.133][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:46.139][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:46.140][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:46.142][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:46.143][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:46.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:46.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:46.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:46.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:46.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:46.155][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.156][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.158][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.164][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:46.166][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:46.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.168][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.170][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:46.171][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:46.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.173][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.175][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:46.176][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:46.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.178][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.180][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:46.181][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:46.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.183][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.185][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:46.186][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:46.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.188][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.190][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:46.191][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:46.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.193][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.194][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:46.196][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:46.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.198][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.199][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:46.201][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:46.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.203][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.204][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:46.206][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:46.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.208][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.209][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:46.210][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:46.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.213][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:46.261][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-10-12 21:32:46.262][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-10-12 21:32:46.271][biodb::testThat]
biodb.INFO [2025-10-12 21:32:46.272][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-10-12 21:32:46.274][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:46.275][biodb::testThat]
biodb.DEBUG[2025-10-12 21:32:46.285][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-10-12 21:32:46.286][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-10-12 21:32:46.288][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-10-12 21:32:46.289][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:46.292][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-10-12 21:32:46.296][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-10-12 21:32:46.300][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-10-12 21:32:46.302][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:46.303][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-10-12 21:32:46.305][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:46.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:46.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:46.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:46.314][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:46.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:46.316][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:46.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:46.326][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.328][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.330][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.337][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:46.338][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:46.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.340][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.341][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:46.342][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:46.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.345][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.346][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:46.347][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:46.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.350][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.351][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:46.352][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:46.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.354][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.356][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:46.357][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:46.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.359][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.360][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:46.362][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:46.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.364][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.365][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:46.366][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:46.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.369][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.370][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:46.371][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:46.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.373][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.375][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:46.376][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:46.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.378][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.380][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:46.381][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:46.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.383][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:46.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:46.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:46.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:46.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:46.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:46.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:46.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:46.430][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.431][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.433][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.440][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:46.441][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:46.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.443][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.444][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:46.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:46.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.449][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:46.450][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:46.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.453][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.454][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:46.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:46.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.459][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:46.460][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:46.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.462][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.464][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:46.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:46.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.469][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:46.470][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:46.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.472][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.474][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:46.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:46.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.478][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:46.480][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:46.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.482][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.483][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:46.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:46.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.488][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:46.489][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:46.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.491][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.493][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:46.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:46.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.497][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:46.499][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:46.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.501][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:46.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:46.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.515][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:46.516][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:46.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.518][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.520][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:46.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:46.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.524][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:46.526][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:46.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.528][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.529][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:46.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:46.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.534][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:46.536][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:46.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.538][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.539][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:46.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:46.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.558][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:46.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:46.577][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:46.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:46.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:46.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:46.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:46.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:46.590][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.591][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.593][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.600][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:46.601][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:46.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.603][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.604][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:46.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:46.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.609][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:46.610][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:46.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.613][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.614][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:46.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:46.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.619][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:46.620][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:46.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.622][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.624][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:46.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:46.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.628][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:46.630][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:46.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.632][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.633][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:46.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:46.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.638][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:46.639][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:46.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.642][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.643][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:46.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:46.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.648][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:46.650][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:46.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.652][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.654][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:46.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:46.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.659][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:46.660][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:46.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.662][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:46.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:46.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.668][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:46.670][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:46.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.672][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.674][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:46.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:46.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.678][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:46.680][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:46.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.682][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.683][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:46.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:46.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.688][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:46.689][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:46.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.699][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.701][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:46.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:46.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:46.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:46.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:46.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:46.779][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-10-12 21:32:46.780][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-10-12 21:32:46.781][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-10-12 21:32:46.796][biodb::testThat]
biodb.INFO [2025-10-12 21:32:46.798][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-10-12 21:32:46.799][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:46.800][biodb::testThat]
biodb.INFO [2025-10-12 21:32:46.827][biodb::testThat]
biodb.INFO [2025-10-12 21:32:46.828][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-10-12 21:32:46.829][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:46.830][biodb::testThat]
biodb.INFO [2025-10-12 21:32:46.839][biodb::testThat]
biodb.INFO [2025-10-12 21:32:46.841][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-10-12 21:32:46.842][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:46.843][biodb::testThat]
sched.DEBUG[2025-10-12 21:32:46.846][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:46.848][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:46.862][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-10-12 21:32:46.863][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-12 21:32:46.888][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:46.894][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:46.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.900][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:46.901][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:46.903][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:46.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:46.905][ef$get] fields variable is a list.
biodb.INFO [2025-10-12 21:32:46.907][biodb::testThat]
biodb.INFO [2025-10-12 21:32:46.922][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-10-12 21:32:46.924][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:46.925][biodb::testThat]
biodb.ERROR[2025-10-12 21:32:46.941][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-10-12 21:32:46.959][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-10-12 21:32:46.973][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-12 21:32:46.975][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-12 21:32:46.976][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-12 21:32:46.977][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:46.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:46.979][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:46.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:46.982][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:46.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-12 21:32:46.999][biodb::testContext]
biodb.INFO [2025-10-12 21:32:47.001][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-12 21:32:47.002][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-10-12 21:32:47.004][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-12 21:32:47.005][biodb::testContext]
biodb.INFO [2025-10-12 21:32:47.008][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-12 21:32:47.011][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-12 21:32:47.017][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-12 21:32:47.019][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-12 21:32:47.020][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-12 21:32:47.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.026][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-12 21:32:47.056][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-12 21:32:47.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.062][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-12 21:32:47.064][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-12 21:32:47.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.069][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-12 21:32:47.071][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-12 21:32:47.072][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-12 21:32:47.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.078][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-12 21:32:47.079][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-12 21:32:47.081][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-12 21:32:47.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.086][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-12 21:32:47.088][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-12 21:32:47.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.093][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-12 21:32:47.094][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-12 21:32:47.096][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-12 21:32:47.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.099][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.DEBUG[2025-10-12 21:32:47.101][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-12 21:32:47.102][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-12 21:32:47.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.107][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-12 21:32:47.109][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-12 21:32:47.110][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-12 21:32:47.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.116][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-12 21:32:47.117][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-12 21:32:47.119][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-12 21:32:47.120][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-12 21:32:47.121][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-12 21:32:47.123][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-12 21:32:47.124][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.128][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-12 21:32:47.138][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-12 21:32:47.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.144][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-12 21:32:47.146][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-12 21:32:47.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.151][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-12 21:32:47.153][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-12 21:32:47.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.158][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-12 21:32:47.160][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-12 21:32:47.161][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-12 21:32:47.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.167][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-12 21:32:47.168][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-12 21:32:47.177][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-12 21:32:47.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.182][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-12 21:32:47.184][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-12 21:32:47.185][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-12 21:32:47.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.191][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-12 21:32:47.194][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:47.195][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-12 21:32:47.197][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:47.198][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:47.200][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:47.201][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:47.203][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:47.204][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-12 21:32:47.206][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-12 21:32:47.207][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:47.209][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:47.210][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-12 21:32:47.212][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:47.213][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:47.215][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:47.216][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-12 21:32:47.216][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-12 21:32:47.216][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-12 21:32:47.216][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-12 21:32:47.216][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-12 21:32:47.218][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-12 21:32:47.220][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:47.221][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:47.222][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:47.224][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:47.225][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:47.227][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:47.228][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:47.230][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:47.231][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:47.233][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:47.234][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:47.236][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-12 21:32:47.239][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:47.240][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-12 21:32:47.242][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:47.244][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:47.245][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:47.247][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:47.248][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:47.250][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-12 21:32:47.251][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-12 21:32:47.253][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:47.254][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:47.256][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-12 21:32:47.257][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:47.259][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:47.260][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:47.262][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-12 21:32:47.262][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-12 21:32:47.262][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-12 21:32:47.262][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-12 21:32:47.262][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-12 21:32:47.264][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-12 21:32:47.265][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:47.266][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:47.268][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:47.269][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:47.271][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:47.272][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:47.274][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:47.275][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:47.276][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:47.278][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:47.279][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:47.281][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-12 21:32:47.284][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:47.285][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-12 21:32:47.287][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:47.288][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:47.290][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:47.291][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:47.293][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:47.294][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-12 21:32:47.296][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-12 21:32:47.297][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:47.299][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:47.300][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-12 21:32:47.302][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:47.303][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:47.305][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:47.306][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:47.308][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-12 21:32:47.309][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:47.311][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:47.312][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:47.314][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:47.315][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:47.316][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:47.318][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:47.319][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:47.321][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:47.322][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:47.324][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:47.325][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-12 21:32:47.328][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:47.330][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-12 21:32:47.331][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:47.333][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:47.334][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:47.336][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:47.337][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:47.339][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-12 21:32:47.340][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-12 21:32:47.342][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:47.343][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:47.345][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-12 21:32:47.346][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:47.348][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:47.349][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:47.351][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:47.352][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-12 21:32:47.354][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:47.355][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:47.357][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:47.358][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:47.360][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:47.361][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:47.363][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:47.364][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:47.365][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:47.367][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:47.376][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:47.378][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-12 21:32:47.380][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.388][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[2025-10-12 21:32:47.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.491][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-12 21:32:47.494][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-12 21:32:47.496][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-12 21:32:47.498][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-12 21:32:47.500][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-12 21:32:47.502][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-12 21:32:47.504][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-12 21:32:47.506][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-12 21:32:47.508][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-12 21:32:47.510][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-12 21:32:47.512][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-12 21:32:47.515][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-12 21:32:47.517][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-12 21:32:47.519][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-12 21:32:47.521][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-12 21:32:47.523][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-12 21:32:47.525][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-12 21:32:47.527][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-12 21:32:47.529][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-12 21:32:47.531][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-12 21:32:47.533][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-12 21:32:47.535][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-12 21:32:47.537][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-12 21:32:47.540][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-12 21:32:47.542][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-12 21:32:47.544][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-12 21:32:47.546][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-12 21:32:47.548][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-12 21:32:47.550][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-12 21:32:47.552][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-12 21:32:47.554][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-12 21:32:47.556][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-12 21:32:47.558][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-12 21:32:47.560][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-12 21:32:47.562][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-12 21:32:47.564][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-12 21:32:47.566][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-12 21:32:47.568][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-12 21:32:47.571][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-12 21:32:47.573][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-12 21:32:47.575][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-12 21:32:47.577][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-12 21:32:47.579][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-12 21:32:47.581][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-12 21:32:47.583][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-12 21:32:47.585][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-12 21:32:47.587][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-12 21:32:47.589][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-12 21:32:47.591][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-12 21:32:47.601][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-12 21:32:47.604][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-12 21:32:47.606][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-12 21:32:47.608][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-12 21:32:47.610][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-12 21:32:47.613][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-12 21:32:47.615][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-12 21:32:47.617][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-12 21:32:47.619][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-12 21:32:47.621][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-12 21:32:47.623][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-12 21:32:47.625][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-12 21:32:47.627][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-12 21:32:47.629][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-12 21:32:47.631][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-12 21:32:47.633][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-12 21:32:47.635][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-12 21:32:47.637][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-12 21:32:47.640][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-12 21:32:47.642][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-12 21:32:47.644][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-12 21:32:47.646][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-12 21:32:47.648][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-12 21:32:47.650][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-12 21:32:47.652][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-12 21:32:47.654][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-12 21:32:47.656][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-12 21:32:47.658][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-12 21:32:47.660][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-12 21:32:47.662][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-12 21:32:47.664][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-12 21:32:47.666][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-12 21:32:47.668][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-12 21:32:47.670][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-12 21:32:47.673][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-12 21:32:47.675][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-12 21:32:47.677][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-12 21:32:47.678][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.680][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:47.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:47.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:47.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:47.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:47.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:47.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:47.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:47.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:47.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:47.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:47.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:47.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:47.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:47.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:47.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:47.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:47.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:47.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:47.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:47.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.782][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[2025-10-12 21:32:47.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:47.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:47.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:47.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:47.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.803][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:47.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:47.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:47.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:47.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:47.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:47.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:47.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:47.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:47.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:48.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:48.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:48.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:48.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.048][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-12 21:32:48.050][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-12 21:32:48.053][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:48.054][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-12 21:32:48.056][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.057][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:48.058][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.060][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:48.061][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.063][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-12 21:32:48.064][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-12 21:32:48.066][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:48.067][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.069][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-12 21:32:48.070][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:48.072][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-12 21:32:48.072][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-12 21:32:48.072][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-12 21:32:48.072][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-12 21:32:48.072][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-12 21:32:48.072][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-12 21:32:48.072][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-12 21:32:48.072][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-12 21:32:48.072][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-12 21:32:48.072][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-12 21:32:48.072][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-12 21:32:48.073][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:48.075][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-12 21:32:48.075][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-12 21:32:48.075][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-12 21:32:48.076][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-12 21:32:48.077][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:48.079][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:48.080][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:48.081][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:48.083][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:48.084][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:48.086][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-12 21:32:48.086][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-12 21:32:48.087][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:48.088][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:48.090][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.091][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-12 21:32:48.091][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-12 21:32:48.093][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-12 21:32:48.096][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-12 21:32:48.098][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-12 21:32:48.100][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-12 21:32:48.102][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-12 21:32:48.104][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-12 21:32:48.109][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-12 21:32:48.114][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-12 21:32:48.116][biodb::testThat]
biodb.INFO [2025-10-12 21:32:48.117][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-10-12 21:32:48.119][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:48.120][biodb::testThat]
sched.DEBUG[2025-10-12 21:32:48.124][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-12 21:32:48.127][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:48.136][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-12 21:32:48.138][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-12 21:32:48.143][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:48.147][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:48.156][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-12 21:32:48.157][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:48.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:48.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:48.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:48.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.180][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-12 21:32:48.186][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:48.193][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:48.199][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-12 21:32:48.200][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:48.203][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:48.204][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:48.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:48.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:48.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:48.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:48.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.261][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".
sched.DEBUG[2025-10-12 21:32:48.266][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:48.269][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:48.275][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-12 21:32:48.276][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:48.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:48.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:48.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:48.296][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.298][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-12 21:32:48.312][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:48.319][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:48.326][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-12 21:32:48.327][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:48.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:48.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:48.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:48.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.345][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:48.346][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:48.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:48.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-12 21:32:48.364][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:48.368][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:48.371][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-12 21:32:48.373][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:48.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:48.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:48.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:48.385][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-12 21:32:48.392][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:48.396][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:48.399][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-12 21:32:48.401][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:48.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:48.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:48.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:48.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.417][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".
sched.DEBUG[2025-10-12 21:32:48.420][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:48.424][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:48.430][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-10-12 21:32:48.432][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:48.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:48.444][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:48.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:48.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.462][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-12 21:32:48.471][biodb::testThat]
biodb.INFO [2025-10-12 21:32:48.473][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-10-12 21:32:48.474][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:48.475][biodb::testThat]
sched.DEBUG[2025-10-12 21:32:48.479][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:48.483][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:48.493][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-10-12 21:32:48.495][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:48.501][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:48.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:48.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:48.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.524][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".
sched.DEBUG[2025-10-12 21:32:48.529][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:48.532][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:48.538][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-10-12 21:32:48.540][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:48.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:48.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:48.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:48.549][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.553][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.INFO [2025-10-12 21:32:48.558][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-12 21:32:48.560][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-12 21:32:48.561][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-12 21:32:48.562][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:48.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:48.564][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.566][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-12 21:32:48.572][biodb::testContext]
biodb.INFO [2025-10-12 21:32:48.573][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-12 21:32:48.574][biodb::testContext] Test context - Test web services
biodb.INFO [2025-10-12 21:32:48.575][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-12 21:32:48.577][biodb::testContext]
biodb.INFO [2025-10-12 21:32:48.579][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-12 21:32:48.581][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-12 21:32:48.586][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-12 21:32:48.587][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-12 21:32:48.588][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-12 21:32:48.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.592][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-12 21:32:48.620][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-12 21:32:48.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.628][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-12 21:32:48.629][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-12 21:32:48.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.638][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-12 21:32:48.639][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-12 21:32:48.640][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-12 21:32:48.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.644][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-12 21:32:48.645][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-12 21:32:48.646][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-12 21:32:48.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.651][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-12 21:32:48.652][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-12 21:32:48.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.656][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-12 21:32:48.657][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-12 21:32:48.658][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-12 21:32:48.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.662][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-12 21:32:48.663][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-12 21:32:48.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.668][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-12 21:32:48.669][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-12 21:32:48.670][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-12 21:32:48.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.674][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-12 21:32:48.675][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-12 21:32:48.676][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-12 21:32:48.677][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-12 21:32:48.678][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-12 21:32:48.680][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-12 21:32:48.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.684][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-12 21:32:48.685][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-12 21:32:48.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.689][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-12 21:32:48.690][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-12 21:32:48.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.694][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-12 21:32:48.696][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-12 21:32:48.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.700][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-12 21:32:48.701][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-12 21:32:48.702][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-12 21:32:48.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.705][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[2025-10-12 21:32:48.707][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-12 21:32:48.708][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-12 21:32:48.720][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-12 21:32:48.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.724][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-12 21:32:48.725][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-12 21:32:48.727][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-12 21:32:48.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.731][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-12 21:32:48.733][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:48.735][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-12 21:32:48.736][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.737][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:48.738][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.739][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:48.740][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:48.741][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-12 21:32:48.742][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-12 21:32:48.744][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:48.745][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.746][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-12 21:32:48.747][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:48.748][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:48.750][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.751][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-12 21:32:48.751][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-12 21:32:48.751][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-12 21:32:48.751][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-12 21:32:48.751][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-12 21:32:48.752][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-12 21:32:48.753][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:48.754][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:48.755][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:48.756][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:48.757][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:48.758][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:48.760][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:48.761][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:48.762][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:48.763][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:48.764][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:48.766][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-12 21:32:48.768][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:48.769][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-12 21:32:48.770][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.771][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:48.772][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.773][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:48.774][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:48.776][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-12 21:32:48.777][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-12 21:32:48.778][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:48.779][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.780][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-12 21:32:48.781][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:48.783][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:48.784][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.785][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-12 21:32:48.785][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-12 21:32:48.785][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-12 21:32:48.785][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-12 21:32:48.785][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-12 21:32:48.786][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-12 21:32:48.787][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:48.788][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:48.789][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:48.790][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:48.791][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:48.793][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:48.794][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:48.795][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:48.796][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:48.797][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:48.798][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:48.800][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-12 21:32:48.802][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.803][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-12 21:32:48.804][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.805][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:48.806][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.808][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:48.809][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:48.810][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-12 21:32:48.811][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-12 21:32:48.812][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:48.813][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:48.814][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-12 21:32:48.816][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:48.817][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:48.818][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.819][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:48.820][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-12 21:32:48.821][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:48.822][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:48.823][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:48.824][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:48.826][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:48.827][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:48.828][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:48.829][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:48.830][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:48.832][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:48.833][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:48.834][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-12 21:32:48.837][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.838][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-12 21:32:48.839][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.841][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:48.842][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.843][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:48.844][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:48.845][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-12 21:32:48.847][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-12 21:32:48.850][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:48.851][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:48.852][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-12 21:32:48.854][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:48.855][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:48.856][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:48.857][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:48.859][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-12 21:32:48.860][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:48.861][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:48.862][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:48.864][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:48.865][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:48.866][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:48.868][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:48.869][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:48.870][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:48.871][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:48.873][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:48.875][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-12 21:32:48.876][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.877][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[2025-10-12 21:32:48.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.898][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[2025-10-12 21:32:48.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.913][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[2025-10-12 21:32:48.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.951][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[2025-10-12 21:32:48.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:48.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:48.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:48.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:48.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:48.972][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.DEBUG[2025-10-12 21:32:48.974][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-12 21:32:48.976][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-12 21:32:48.977][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-12 21:32:48.979][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-12 21:32:48.980][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-12 21:32:48.982][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-12 21:32:48.983][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-12 21:32:48.985][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-12 21:32:48.987][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-12 21:32:48.988][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-12 21:32:48.990][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-12 21:32:48.991][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-12 21:32:48.993][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-12 21:32:48.994][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-12 21:32:48.996][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-12 21:32:48.998][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-12 21:32:48.999][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-12 21:32:49.001][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-12 21:32:49.002][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-12 21:32:49.004][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-12 21:32:49.005][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-12 21:32:49.007][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-12 21:32:49.008][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-12 21:32:49.010][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-12 21:32:49.011][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-12 21:32:49.013][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-12 21:32:49.015][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-12 21:32:49.016][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-12 21:32:49.018][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-12 21:32:49.019][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-12 21:32:49.021][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-12 21:32:49.022][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-12 21:32:49.024][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-12 21:32:49.025][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-12 21:32:49.027][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-12 21:32:49.028][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-12 21:32:49.030][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-12 21:32:49.031][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-12 21:32:49.033][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-12 21:32:49.034][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-12 21:32:49.036][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-12 21:32:49.038][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-12 21:32:49.039][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-12 21:32:49.041][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-12 21:32:49.042][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-12 21:32:49.044][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-12 21:32:49.045][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-12 21:32:49.047][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-12 21:32:49.049][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-12 21:32:49.050][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-12 21:32:49.052][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-12 21:32:49.053][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-12 21:32:49.055][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-12 21:32:49.056][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-12 21:32:49.058][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-12 21:32:49.060][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-12 21:32:49.061][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-12 21:32:49.063][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-12 21:32:49.065][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-12 21:32:49.066][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-12 21:32:49.068][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-12 21:32:49.069][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-12 21:32:49.071][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-12 21:32:49.072][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-12 21:32:49.074][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-12 21:32:49.076][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-12 21:32:49.077][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-12 21:32:49.079][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-12 21:32:49.080][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-12 21:32:49.082][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-12 21:32:49.083][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-12 21:32:49.085][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-12 21:32:49.087][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-12 21:32:49.088][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-12 21:32:49.090][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-12 21:32:49.091][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-12 21:32:49.093][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-12 21:32:49.095][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-12 21:32:49.096][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-12 21:32:49.098][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-12 21:32:49.099][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-12 21:32:49.101][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-12 21:32:49.102][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-12 21:32:49.104][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-12 21:32:49.106][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-12 21:32:49.107][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-12 21:32:49.108][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.110][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.111][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.DEBUG[2025-10-12 21:32:49.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.124][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.237][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-12 21:32:49.239][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-12 21:32:49.241][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:49.242][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-12 21:32:49.243][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.244][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:49.245][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.246][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:49.247][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.249][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-12 21:32:49.250][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-12 21:32:49.251][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:49.252][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.253][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-12 21:32:49.254][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:49.255][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-12 21:32:49.255][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-12 21:32:49.255][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-12 21:32:49.255][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-12 21:32:49.255][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-12 21:32:49.255][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-12 21:32:49.255][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-12 21:32:49.255][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-12 21:32:49.255][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-12 21:32:49.255][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-12 21:32:49.255][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-12 21:32:49.257][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:49.258][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-12 21:32:49.258][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-12 21:32:49.258][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-12 21:32:49.259][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-12 21:32:49.260][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:49.261][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:49.262][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:49.263][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:49.264][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:49.265][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:49.266][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-12 21:32:49.266][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-12 21:32:49.267][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:49.268][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:49.269][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.270][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-12 21:32:49.270][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-12 21:32:49.272][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-12 21:32:49.274][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-12 21:32:49.276][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-12 21:32:49.277][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-12 21:32:49.279][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-12 21:32:49.281][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-12 21:32:49.284][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-12 21:32:49.288][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-12 21:32:49.289][biodb::testThat]
biodb.INFO [2025-10-12 21:32:49.290][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-10-12 21:32:49.292][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:49.293][biodb::testThat]
sched.DEBUG[2025-10-12 21:32:49.295][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-12 21:32:49.298][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:49.305][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-12 21:32:49.306][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-12 21:32:49.310][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:49.312][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:49.318][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-12 21:32:49.319][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-12 21:32:49.331][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-12 21:32:49.333][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-12 21:32:49.334][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-12 21:32:49.335][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.337][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.339][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-12 21:32:49.344][biodb::testContext]
biodb.INFO [2025-10-12 21:32:49.345][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-12 21:32:49.346][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-10-12 21:32:49.347][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-12 21:32:49.348][biodb::testContext]
biodb.INFO [2025-10-12 21:32:49.351][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-12 21:32:49.353][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-12 21:32:49.357][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-12 21:32:49.358][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-12 21:32:49.360][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-12 21:32:49.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.364][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-12 21:32:49.384][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-12 21:32:49.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.389][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-12 21:32:49.390][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-12 21:32:49.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.394][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-12 21:32:49.395][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-12 21:32:49.397][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-12 21:32:49.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.401][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-12 21:32:49.402][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-12 21:32:49.403][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-12 21:32:49.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.406][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.DEBUG[2025-10-12 21:32:49.407][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-12 21:32:49.409][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-12 21:32:49.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.413][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-12 21:32:49.414][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-12 21:32:49.415][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-12 21:32:49.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.419][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-12 21:32:49.421][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-12 21:32:49.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.425][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-12 21:32:49.426][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-12 21:32:49.427][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-12 21:32:49.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.431][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-12 21:32:49.433][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-12 21:32:49.434][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-12 21:32:49.435][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-12 21:32:49.436][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-12 21:32:49.437][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-12 21:32:49.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.441][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-12 21:32:49.443][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-12 21:32:49.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.447][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-12 21:32:49.448][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-12 21:32:49.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.452][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-12 21:32:49.453][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-12 21:32:49.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.457][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-12 21:32:49.459][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-12 21:32:49.460][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-12 21:32:49.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.464][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-12 21:32:49.465][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-12 21:32:49.472][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-12 21:32:49.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.478][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-12 21:32:49.480][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-12 21:32:49.481][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-12 21:32:49.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.487][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-12 21:32:49.489][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:49.491][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-12 21:32:49.493][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.494][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:49.495][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.497][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:49.498][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:49.500][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-12 21:32:49.501][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-12 21:32:49.503][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:49.504][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.505][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-12 21:32:49.507][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:49.508][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:49.510][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.511][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-12 21:32:49.511][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-12 21:32:49.511][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-12 21:32:49.511][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-12 21:32:49.511][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-12 21:32:49.513][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-12 21:32:49.514][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:49.515][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:49.517][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:49.518][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:49.519][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:49.521][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:49.522][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:49.523][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:49.525][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:49.526][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:49.528][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:49.529][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-12 21:32:49.532][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:49.533][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-12 21:32:49.535][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.536][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:49.538][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.539][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:49.540][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:49.542][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-12 21:32:49.543][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-12 21:32:49.545][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:49.546][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.548][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-12 21:32:49.549][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:49.550][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:49.552][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.553][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-12 21:32:49.553][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-12 21:32:49.553][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-12 21:32:49.553][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-12 21:32:49.553][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-12 21:32:49.555][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-12 21:32:49.556][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:49.557][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:49.559][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:49.560][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:49.561][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:49.563][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:49.564][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:49.566][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:49.567][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:49.568][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:49.570][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:49.571][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-12 21:32:49.574][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.575][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-12 21:32:49.577][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.578][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:49.580][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.581][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:49.583][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:49.584][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-12 21:32:49.585][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-12 21:32:49.587][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:49.588][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:49.590][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-12 21:32:49.591][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:49.593][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:49.594][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.595][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:49.597][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-12 21:32:49.598][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:49.599][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:49.608][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:49.609][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:49.611][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:49.612][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:49.614][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:49.615][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:49.616][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:49.617][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:49.619][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:49.620][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-12 21:32:49.623][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.624][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-12 21:32:49.625][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.627][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:49.628][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.630][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:49.631][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:49.633][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-12 21:32:49.634][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-12 21:32:49.635][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:49.637][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:49.638][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-12 21:32:49.640][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:49.641][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:49.643][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:49.644][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:49.646][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-12 21:32:49.647][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:49.648][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:49.650][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:49.651][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:49.652][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:49.654][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:49.655][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:49.657][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:49.658][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:49.659][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:49.661][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-12 21:32:49.663][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-12 21:32:49.664][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.718][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.DEBUG[2025-10-12 21:32:49.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.766][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-12 21:32:49.767][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-12 21:32:49.769][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-12 21:32:49.770][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-12 21:32:49.772][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-12 21:32:49.774][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-12 21:32:49.775][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-12 21:32:49.777][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-12 21:32:49.778][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-12 21:32:49.780][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-12 21:32:49.781][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-12 21:32:49.783][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-12 21:32:49.785][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-12 21:32:49.786][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-12 21:32:49.788][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-12 21:32:49.789][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-12 21:32:49.791][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-12 21:32:49.792][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-12 21:32:49.794][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-12 21:32:49.796][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-12 21:32:49.797][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-12 21:32:49.799][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-12 21:32:49.800][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-12 21:32:49.802][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-12 21:32:49.804][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-12 21:32:49.805][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-12 21:32:49.807][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-12 21:32:49.808][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-12 21:32:49.810][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-12 21:32:49.811][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-12 21:32:49.813][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-12 21:32:49.815][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-12 21:32:49.816][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-12 21:32:49.818][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-12 21:32:49.819][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-12 21:32:49.821][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-12 21:32:49.822][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-12 21:32:49.824][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-12 21:32:49.826][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-12 21:32:49.827][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-12 21:32:49.829][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-12 21:32:49.831][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-12 21:32:49.832][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-12 21:32:49.834][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-12 21:32:49.835][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-12 21:32:49.837][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-12 21:32:49.839][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-12 21:32:49.840][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-12 21:32:49.842][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-12 21:32:49.843][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-12 21:32:49.845][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-12 21:32:49.846][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-12 21:32:49.848][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-12 21:32:49.850][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-12 21:32:49.851][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-12 21:32:49.853][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-12 21:32:49.854][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-12 21:32:49.856][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-12 21:32:49.858][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-12 21:32:49.859][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-12 21:32:49.861][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-12 21:32:49.862][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-12 21:32:49.864][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-12 21:32:49.865][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-12 21:32:49.867][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-12 21:32:49.869][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-12 21:32:49.870][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-12 21:32:49.872][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-12 21:32:49.873][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-12 21:32:49.875][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-12 21:32:49.877][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-12 21:32:49.878][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-12 21:32:49.880][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-12 21:32:49.882][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-12 21:32:49.883][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-12 21:32:49.885][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-12 21:32:49.887][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-12 21:32:49.888][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-12 21:32:49.890][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-12 21:32:49.892][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-12 21:32:49.893][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-12 21:32:49.895][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-12 21:32:49.897][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-12 21:32:49.898][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-12 21:32:49.900][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-12 21:32:49.901][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-12 21:32:49.902][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.905][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.932][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.DEBUG[2025-10-12 21:32:49.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:49.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:49.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:49.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:49.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:49.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:49.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:49.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:50.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:50.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:50.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:50.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:50.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:50.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:50.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:50.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:50.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:50.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:50.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:50.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:50.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:50.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:50.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:50.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:50.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:50.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:50.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:50.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:50.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:50.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:50.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:50.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:50.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:50.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:50.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:50.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:50.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:50.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:50.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:50.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:50.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:50.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:50.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:50.046][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".
biodb.DEBUG[2025-10-12 21:32:50.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-12 21:32:50.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:50.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:50.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:50.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:50.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:50.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-12 21:32:50.058][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-12 21:32:50.060][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-12 21:32:50.063][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:50.064][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-12 21:32:50.066][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:50.067][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-12 21:32:50.068][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:50.070][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-12 21:32:50.071][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:50.073][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-12 21:32:50.074][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-12 21:32:50.076][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-12 21:32:50.077][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:50.078][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-12 21:32:50.080][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-12 21:32:50.081][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-12 21:32:50.081][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-12 21:32:50.081][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-12 21:32:50.081][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-12 21:32:50.081][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-12 21:32:50.081][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-12 21:32:50.081][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-12 21:32:50.081][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-12 21:32:50.081][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-12 21:32:50.081][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-12 21:32:50.081][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-12 21:32:50.083][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-12 21:32:50.084][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-12 21:32:50.084][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-12 21:32:50.084][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-12 21:32:50.086][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-12 21:32:50.087][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:50.089][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:50.090][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-12 21:32:50.091][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-12 21:32:50.093][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-12 21:32:50.094][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-12 21:32:50.095][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-12 21:32:50.095][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-12 21:32:50.097][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-12 21:32:50.098][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-12 21:32:50.100][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-12 21:32:50.101][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-12 21:32:50.101][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-12 21:32:50.103][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-12 21:32:50.105][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-12 21:32:50.108][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-12 21:32:50.110][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-12 21:32:50.112][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-12 21:32:50.114][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-12 21:32:50.119][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-12 21:32:50.124][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-12 21:32:50.129][biodb::testThat]
biodb.INFO [2025-10-12 21:32:50.130][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-10-12 21:32:50.133][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-12 21:32:50.135][biodb::testThat]
sched.DEBUG[2025-10-12 21:32:50.141][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-12 21:32:50.144][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:50.153][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-12 21:32:50.159][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-12 21:32:50.163][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-12 21:32:50.170][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-12 21:32:50.180][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-12 21:32:50.181][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-12 21:32:50.195][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-10-12 21:32:50.202][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-12 21:32:50.211][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-12 21:32:50.241][FUN] Found encoding UTF-8 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-10-12 21:32:50.251][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-12 21:32:50.262][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-12 21:32:50.263][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-12 21:32:50.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-12 21:32:50.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:50.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:50.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:50.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:50.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:50.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-12 21:32:50.322][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:50.328][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:50.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.330][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:50.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:50.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.358][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:50.360][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:50.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.369][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.374][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-12 21:32:50.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-12 21:32:50.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.387][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:50.392][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:50.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.395][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.403][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-12 21:32:50.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-12 21:32:50.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.416][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-12 21:32:50.425][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-12 21:32:50.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.427][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.433][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-12 21:32:50.434][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-12 21:32:50.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.443][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.445][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:50.450][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:50.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.452][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.454][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:50.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-12 21:32:50.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.467][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:50.468][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:50.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.471][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.473][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-12 21:32:50.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-12 21:32:50.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.479][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:50.481][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:50.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.483][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.486][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:50.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-12 21:32:50.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.492][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:50.493][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:50.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.496][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.499][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-12 21:32:50.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-12 21:32:50.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.505][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:50.506][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:50.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.509][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.511][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-12 21:32:50.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-12 21:32:50.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.517][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:50.519][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:50.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.521][ef$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.524][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-12 21:32:50.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-12 21:32:50.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:50.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:50.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:50.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:50.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:50.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:50.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-12 21:32:50.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-12 21:32:50.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:50.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:50.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:50.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:50.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:50.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:50.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:50.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:50.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:50.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:50.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-12 21:32:50.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-12 21:32:50.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-12 21:32:50.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-12 21:32:50.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-12 21:32:50.589][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-10-12 21:32:50.594][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-12 21:32:50.596][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-12 21:32:50.598][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-12 21:32:50.599][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-12 21:32:50.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-12 21:32:50.602][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-12 21:32:50.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-12 21:32:50.604][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-12 21:32:50.606][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
 18.864   0.476  23.395 

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.6830.0420.786
ChebiEntry0.1760.0040.270