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This page was generated on 2025-10-04 12:03 -0400 (Sat, 04 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4853
lconwaymacOS 12.7.1 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4640
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4585
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4576
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 208/2341HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-10-03 13:45 -0400 (Fri, 03 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: 2025-10-03 21:31:50 -0400 (Fri, 03 Oct 2025)
EndedAt: 2025-10-03 21:33:23 -0400 (Fri, 03 Oct 2025)
EllapsedTime: 92.2 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 [2025-10-03 21:32:49.820][biodb::testContext]
biodb.INFO [2025-10-03 21:32:49.822][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-03 21:32:49.823][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-10-03 21:32:49.825][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-03 21:32:49.826][biodb::testContext]
biodb.INFO [2025-10-03 21:32:49.834][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-03 21:32:49.836][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-03 21:32:49.845][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 21:32:49.846][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-03 21:32:49.848][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-03 21:32:49.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:49.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:49.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:49.852][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-03 21:32:49.874][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-03 21:32:49.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:49.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:49.877][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[2025-10-03 21:32:49.879][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-03 21:32:49.880][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-03 21:32:49.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:49.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:49.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:49.896][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-03 21:32:49.897][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-03 21:32:49.899][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-03 21:32:49.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:49.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:49.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:49.903][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-03 21:32:49.904][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-03 21:32:49.905][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-03 21:32:49.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:49.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:49.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:49.909][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-03 21:32:49.910][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-03 21:32:49.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:49.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:49.913][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[2025-10-03 21:32:49.915][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-03 21:32:49.916][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-03 21:32:49.917][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-03 21:32:49.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:49.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:49.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:49.921][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-03 21:32:49.922][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-03 21:32:49.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:49.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 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[2025-10-03 21:32:49.926][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-03 21:32:49.928][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-03 21:32:49.929][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-03 21:32:49.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:49.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:49.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:49.933][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-03 21:32:49.934][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-03 21:32:49.935][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-03 21:32:49.936][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-03 21:32:49.937][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-03 21:32:49.939][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-03 21:32:49.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:49.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:49.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:49.943][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-03 21:32:49.944][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-03 21:32:49.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:49.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:49.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:49.948][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-03 21:32:49.949][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-03 21:32:49.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:49.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:49.953][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.DEBUG[2025-10-03 21:32:49.954][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-03 21:32:49.955][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-03 21:32:49.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:49.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:49.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:49.959][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-03 21:32:49.960][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-03 21:32:49.961][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-03 21:32:49.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:49.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:49.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:49.966][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-03 21:32:49.967][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-03 21:32:49.977][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-03 21:32:49.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:49.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:49.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:49.985][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-03 21:32:49.990][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-03 21:32:49.991][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-03 21:32:49.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.008][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-03 21:32:50.071][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:32:50.107][self$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[2025-10-03 21:32:50.108][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.110][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:32:50.111][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.113][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:32:50.114][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 21:32:50.116][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 21:32:50.117][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-03 21:32:50.119][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:32:50.120][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.122][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-03 21:32:50.123][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:32:50.125][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 21:32:50.126][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.128][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 21:32:50.128][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 21:32:50.128][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 21:32:50.128][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-03 21:32:50.128][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-03 21:32:50.129][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 21:32:50.131][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:32:50.132][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:32:50.134][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:32:50.135][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:32:50.136][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:32:50.138][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:32:50.139][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 21:32:50.141][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:32:50.142][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:32:50.143][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 21:32:50.145][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 21:32:50.147][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-03 21:32:50.149][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:32:50.151][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-03 21:32:50.152][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.154][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:32:50.155][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.157][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:32:50.158][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 21:32:50.160][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 21:32:50.161][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-03 21:32:50.163][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:32:50.164][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.166][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-03 21:32:50.167][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:32:50.169][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 21:32:50.170][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.172][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 21:32:50.172][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 21:32:50.172][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 21:32:50.172][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-03 21:32:50.172][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-03 21:32:50.173][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 21:32:50.174][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:32:50.176][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:32:50.177][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:32:50.179][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:32:50.180][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:32:50.181][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:32:50.183][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 21:32:50.184][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:32:50.186][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:32:50.187][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 21:32:50.189][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 21:32:50.190][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-03 21:32:50.193][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.195][self$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[2025-10-03 21:32:50.196][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.197][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:32:50.199][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.200][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:32:50.202][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 21:32:50.203][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 21:32:50.205][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-03 21:32:50.206][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:32:50.208][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:32:50.209][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-03 21:32:50.211][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:32:50.213][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 21:32:50.214][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.216][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-03 21:32:50.217][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 21:32:50.219][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:32:50.220][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:32:50.222][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:32:50.223][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:32:50.224][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:32:50.226][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:32:50.227][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 21:32:50.229][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:32:50.230][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:32:50.231][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 21:32:50.233][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 21:32:50.235][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-03 21:32:50.237][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.245][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-03 21:32:50.247][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.248][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:32:50.250][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.251][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:32:50.253][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 21:32:50.254][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 21:32:50.256][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-03 21:32:50.257][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:32:50.259][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:32:50.260][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-03 21:32:50.262][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:32:50.263][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 21:32:50.265][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.266][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-03 21:32:50.268][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 21:32:50.269][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:32:50.270][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:32:50.272][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:32:50.273][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:32:50.274][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:32:50.276][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:32:50.277][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 21:32:50.279][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:32:50.280][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:32:50.282][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 21:32:50.283][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 21:32:50.289][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 21:32:50.291][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.400][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-03 21:32:50.407][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-03 21:32:50.409][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-03 21:32:50.411][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-03 21:32:50.413][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-03 21:32:50.415][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-03 21:32:50.418][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-03 21:32:50.420][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-03 21:32:50.422][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-03 21:32:50.424][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-03 21:32:50.426][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-03 21:32:50.428][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-03 21:32:50.430][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-03 21:32:50.432][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-03 21:32:50.434][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-03 21:32:50.436][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-03 21:32:50.438][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-03 21:32:50.440][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-03 21:32:50.442][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-03 21:32:50.444][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-03 21:32:50.446][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-03 21:32:50.448][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-03 21:32:50.450][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-03 21:32:50.452][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-03 21:32:50.455][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-03 21:32:50.457][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-03 21:32:50.459][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-03 21:32:50.461][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-03 21:32:50.463][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-03 21:32:50.465][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-03 21:32:50.467][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-03 21:32:50.469][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-03 21:32:50.471][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-03 21:32:50.473][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-03 21:32:50.475][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-03 21:32:50.477][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-03 21:32:50.479][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-03 21:32:50.481][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-03 21:32:50.483][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-03 21:32:50.485][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-03 21:32:50.487][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-03 21:32:50.490][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-03 21:32:50.492][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-03 21:32:50.494][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-03 21:32:50.496][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-03 21:32:50.498][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-03 21:32:50.500][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-03 21:32:50.502][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-03 21:32:50.504][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-03 21:32:50.506][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-03 21:32:50.508][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-03 21:32:50.510][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-03 21:32:50.512][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-03 21:32:50.514][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-03 21:32:50.516][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-03 21:32:50.518][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-03 21:32:50.520][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-03 21:32:50.522][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-03 21:32:50.525][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-03 21:32:50.527][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-03 21:32:50.529][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-03 21:32:50.531][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-03 21:32:50.533][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-03 21:32:50.535][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-03 21:32:50.537][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-03 21:32:50.539][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-03 21:32:50.541][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-03 21:32:50.543][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-03 21:32:50.545][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-03 21:32:50.547][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-03 21:32:50.549][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-03 21:32:50.551][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-03 21:32:50.553][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-03 21:32:50.555][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-03 21:32:50.557][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-03 21:32:50.559][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-03 21:32:50.562][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-03 21:32:50.564][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-03 21:32:50.566][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-03 21:32:50.574][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-03 21:32:50.576][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-03 21:32:50.578][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-03 21:32:50.580][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-03 21:32:50.590][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-03 21:32:50.592][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-03 21:32:50.597][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 21:32:50.599][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.601][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.603][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[2025-10-03 21:32:50.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:50.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:50.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:50.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:50.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.627][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[2025-10-03 21:32:50.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:50.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:50.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:50.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:50.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.646][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[2025-10-03 21:32:50.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:50.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:50.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.655][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[2025-10-03 21:32:50.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:50.659][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:50.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:50.668][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:50.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.673][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[2025-10-03 21:32:50.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:50.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:50.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.682][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[2025-10-03 21:32:50.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:50.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:50.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:50.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:50.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:50.705][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:50.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:50.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:50.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:50.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:50.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:50.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:50.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:50.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:50.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:32:50.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:50.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:50.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:50.759][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-03 21:32:50.775][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-03 21:32:50.778][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:32:50.780][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-03 21:32:50.781][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.783][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:32:50.784][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.785][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:32:50.787][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.788][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-03 21:32:50.790][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-03 21:32:50.791][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:32:50.793][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.794][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-03 21:32:50.796][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:32:50.797][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-03 21:32:50.797][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-03 21:32:50.797][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-03 21:32:50.797][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-03 21:32:50.797][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-03 21:32:50.797][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-03 21:32:50.797][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-03 21:32:50.797][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-03 21:32:50.797][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-03 21:32:50.797][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-03 21:32:50.797][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-03 21:32:50.800][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-03 21:32:50.802][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 21:32:50.802][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 21:32:50.802][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 21:32:50.803][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-03 21:32:50.805][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:32:50.806][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:32:50.807][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:32:50.809][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:32:50.810][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:32:50.812][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:32:50.813][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-03 21:32:50.813][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-03 21:32:50.814][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:32:50.816][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:32:50.817][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-03 21:32:50.819][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-03 21:32:50.819][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-03 21:32:50.828][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-03 21:32:50.831][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-03 21:32:50.833][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-03 21:32:50.835][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-03 21:32:50.838][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-03 21:32:50.840][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-03 21:32:50.875][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-03 21:32:50.899][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-03 21:32:50.913][biodb::testThat]
biodb.INFO [2025-10-03 21:32:50.925][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-10-03 21:32:50.926][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:32:50.928][biodb::testThat]
biodb.TRACE[2025-10-03 21:32:50.936][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-10-03 21:32:50.939][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:50.948][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:50.961][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:50.962][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:50.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:50.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:50.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:50.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:50.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:51.000][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.002][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.005][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.033][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:51.034][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:51.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.037][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.081][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:51.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:51.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.087][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:51.089][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:51.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.092][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.094][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:51.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:51.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.100][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:51.101][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:51.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.104][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.106][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:51.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:51.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.112][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:51.113][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:51.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.116][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.118][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:51.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:51.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.124][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:51.126][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:51.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.128][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.130][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:51.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:51.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.136][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:51.138][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:51.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.141][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.143][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:51.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:51.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.149][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:51.150][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:51.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.153][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:51.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:51.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.161][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:51.163][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:51.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.165][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.168][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:51.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:51.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.174][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:51.175][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:51.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.178][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.180][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:51.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:51.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.186][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:51.187][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:51.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.190][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.192][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:51.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:51.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.198][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:51.321][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-10-03 21:32:51.325][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:51.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:51.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.331][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:51.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:51.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.375][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:51.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:51.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.381][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:51.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:51.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.387][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:51.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:51.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:51.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:51.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.399][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-03 21:32:51.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-03 21:32:51.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.405][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-03 21:32:51.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-03 21:32:51.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.411][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-03 21:32:51.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-03 21:32:51.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.417][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-03 21:32:51.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-03 21:32:51.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.561][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.563][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.566][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:51.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:51.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.585][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.603][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.605][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.608][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:51.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.627][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:51.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:51.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.633][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:51.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:51.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.639][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:51.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:51.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.645][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:51.646][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:51.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.649][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.651][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:51.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:51.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.668][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:51.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:51.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.674][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:51.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:51.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.680][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:51.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:51.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.686][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:51.687][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:51.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.690][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.692][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:51.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:51.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:51.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:51.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:51.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:51.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:51.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:51.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.726][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:51.728][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:51.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.731][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.732][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:51.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:51.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:51.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:51.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:51.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:51.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:51.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:51.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.767][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:51.769][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:51.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.772][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:51.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:51.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.833][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:51.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:51.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.839][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:51.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:51.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.845][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:51.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:51.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.851][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:51.852][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:51.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.855][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.857][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:51.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:51.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.874][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-03 21:32:51.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:51.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.879][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-03 21:32:51.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:51.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.885][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-03 21:32:51.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:51.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.891][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-03 21:32:51.892][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:51.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.895][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.896][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-03 21:32:51.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:51.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.910][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:51.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:51.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.915][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:51.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:51.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.919][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:51.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:51.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.924][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:51.926][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:51.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.928][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.929][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:51.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:51.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.943][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:51.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:51.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.947][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:51.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:51.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.952][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:51.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:51.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.956][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:51.957][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:51.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.960][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.961][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:51.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:51.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:51.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:51.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.978][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:51.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:51.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.983][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:51.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:51.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.988][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:51.990][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:51.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.993][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:51.994][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:51.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:51.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:51.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.008][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:52.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:52.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.014][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:52.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:52.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.019][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:52.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:52.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.023][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:52.024][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:52.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.027][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.028][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:52.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:52.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.041][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:52.042][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:52.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.044][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.049][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:52.051][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:52.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.053][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.063][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:52.065][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:52.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.067][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.072][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:52.073][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:52.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.076][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.081][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:52.082][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:52.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.084][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.089][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:52.090][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:52.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.093][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.098][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:52.099][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:52.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.101][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.106][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:52.107][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:52.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.110][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.115][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-03 21:32:52.116][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:52.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.118][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.123][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:52.125][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:52.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.127][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.132][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:52.133][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:52.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.136][ef$get] fields variable is a list.
biodb.INFO [2025-10-03 21:32:52.144][biodb::testThat]
biodb.INFO [2025-10-03 21:32:52.145][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-10-03 21:32:52.146][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:32:52.147][biodb::testThat]
biodb.DEBUG[2025-10-03 21:32:52.163][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-10-03 21:32:52.166][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:52.171][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:52.178][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-10-03 21:32:52.180][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:52.209][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:52.210][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:52.212][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:52.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:52.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:52.220][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:52.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:52.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:52.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:52.226][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:52.227][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:52.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.229][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:52.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:52.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.255][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:52.256][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:52.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.259][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.260][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:52.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:52.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.265][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:52.266][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:52.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.275][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.276][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:52.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:52.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.281][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:52.282][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:52.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.284][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.286][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:52.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:52.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.291][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:52.292][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:52.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.294][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:52.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:52.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.300][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:52.301][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:52.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.303][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.305][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:52.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:52.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.309][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:52.311][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:52.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.313][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.314][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:52.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:52.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.319][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:52.320][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:52.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.322][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.324][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:52.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:52.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.329][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:52.330][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:52.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.332][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.334][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:52.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:52.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.338][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:52.340][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:52.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.342][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.343][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:52.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:52.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.349][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:52.350][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:52.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.353][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.355][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:52.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:52.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:52.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:52.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:52.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:52.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:52.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:52.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:52.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:52.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:52.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:52.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:52.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:52.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:52.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:52.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:52.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:52.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:52.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:52.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:52.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:52.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:52.422][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-10-03 21:32:52.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-10-03 21:32:52.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-10-03 21:32:52.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-10-03 21:32:52.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-10-03 21:32:52.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-10-03 21:32:52.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-10-03 21:32:52.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-03 21:32:52.452][biodb::testThat]
biodb.INFO [2025-10-03 21:32:52.454][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-10-03 21:32:52.455][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:32:52.457][biodb::testThat]
biodb.TRACE[2025-10-03 21:32:52.461][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:52.463][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:52.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.465][ef$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:52.466][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-10-03 21:32:52.495][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:52.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:52.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.500][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:52.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:52.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.505][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:52.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:52.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:52.519][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-10-03 21:32:52.525][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-03 21:32:52.549][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:32:52.556][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-03 21:32:52.558][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-03 21:32:52.581][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 21:32:52.618][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:32:52.624][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-03 21:32:52.626][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:32:52.629][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-10-03 21:32:52.645][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:52.647][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:52.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.650][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.651][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:52.653][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:52.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.655][ef$get] fields variable is a list.
biodb.INFO [2025-10-03 21:32:52.661][biodb::testThat]
biodb.INFO [2025-10-03 21:32:52.663][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-10-03 21:32:52.664][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:32:52.665][biodb::testThat]
biodb.TRACE[2025-10-03 21:32:52.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:52.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:52.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.707][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:52.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:52.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.713][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:52.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:52.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 21:32:52.810][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 [2025-10-03 21:32:52.815][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:32:52.820][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-03 21:32:52.822][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-03 21:32:52.843][biodb::testThat]
biodb.INFO [2025-10-03 21:32:52.844][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-10-03 21:32:52.846][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:32:52.847][biodb::testThat]
biodb.TRACE[2025-10-03 21:32:52.877][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:52.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:52.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.884][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:52.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:52.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.890][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:52.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:52.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.895][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:52.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:52.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:52.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:52.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.907][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:52.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:52.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.913][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-03 21:32:52.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-03 21:32:52.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.919][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-03 21:32:52.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-03 21:32:52.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.925][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-03 21:32:52.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-03 21:32:52.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.930][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-03 21:32:52.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-03 21:32:52.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.964][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:52.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:52.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.970][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:52.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:52.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.976][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:52.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:52.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.982][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:52.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:52.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:52.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:52.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:52.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:52.999][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:53.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:53.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:53.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:53.005][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-03 21:32:53.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-03 21:32:53.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:53.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:53.010][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-03 21:32:53.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-03 21:32:53.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:53.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:53.016][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-03 21:32:53.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-03 21:32:53.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:53.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:53.021][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-03 21:32:53.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-03 21:32:53.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:53.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-03 21:32:53.035][biodb::testThat]
biodb.INFO [2025-10-03 21:32:53.036][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-10-03 21:32:53.038][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:32:53.039][biodb::testThat]
biodb.INFO [2025-10-03 21:32:53.063][biodb::testThat]
biodb.INFO [2025-10-03 21:32:53.065][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-10-03 21:32:53.066][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:32:53.067][biodb::testThat]
biodb.INFO [2025-10-03 21:32:53.077][biodb::testThat]
biodb.INFO [2025-10-03 21:32:53.079][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-10-03 21:32:53.080][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:32:53.082][biodb::testThat]
biodb.DEBUG[2025-10-03 21:32:53.087][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-10-03 21:32:53.787][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-10-03 21:32:54.832][biodb::testThat]
biodb.INFO [2025-10-03 21:32:54.834][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-10-03 21:32:54.835][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:32:54.836][biodb::testThat]
biodb.TRACE[2025-10-03 21:32:54.842][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:54.843][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:54.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:54.845][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:54.846][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:54.848][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:54.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:54.850][ef$get] fields variable is a list.
biodb.INFO [2025-10-03 21:32:54.852][biodb::testThat]
biodb.INFO [2025-10-03 21:32:54.853][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-10-03 21:32:54.854][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:32:54.855][biodb::testThat]
biodb.TRACE[2025-10-03 21:32:54.866][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:54.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:54.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:54.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:54.871][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:54.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:54.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:54.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:54.876][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:54.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:54.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:54.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 21:32:55.002][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 [2025-10-03 21:32:55.006][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:32:55.009][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-03 21:32:55.011][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-03 21:32:55.108][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 [2025-10-03 21:32:55.140][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:32:55.145][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-03 21:32:55.146][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-03 21:32:55.160][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-03 21:32:55.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-03 21:32:55.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 21:32:55.200][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 [2025-10-03 21:32:55.203][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:32:55.205][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-03 21:32:55.207][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:32:55.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:55.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:55.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:55.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:55.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:55.219][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:55.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:55.222][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-10-03 21:32:55.275][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:55.277][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:55.281][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-10-03 21:32:55.282][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:55.284][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:55.285][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:55.287][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:55.288][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:55.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:55.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:55.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:55.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:55.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:55.300][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.301][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.304][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.310][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:55.318][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:55.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.320][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.322][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:55.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:55.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.326][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:55.327][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:55.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.330][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.332][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:55.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:55.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.336][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:55.337][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:55.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.339][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.341][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:55.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:55.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.345][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:55.346][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:55.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.348][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.350][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:55.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:55.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.355][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:55.356][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:55.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.358][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.360][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:55.361][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.363][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.364][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:55.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.369][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:55.371][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:55.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.373][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:55.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:55.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.379][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:55.380][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:55.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.382][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.384][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:55.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:55.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.389][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:55.390][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:55.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.392][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.393][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:55.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:55.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.398][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:55.399][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:55.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.401][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.403][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:55.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:55.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:55.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:55.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:55.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:55.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:55.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:55.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:55.499][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-10-03 21:32:55.510][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.520][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 21:32:55.526][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 21:32:55.529][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:32:55.535][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-03 21:32:55.536][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:32:55.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:55.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:55.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:55.575][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:55.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:55.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:55.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:55.580][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.592][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:55.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:55.599][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:55.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:55.606][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:55.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:55.609][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:55.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:55.612][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-10-03 21:32:55.614][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:55.616][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:55.625][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-10-03 21:32:55.626][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:55.628][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:55.630][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:55.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:55.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:55.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:55.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:55.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:55.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:55.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:55.649][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.650][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.653][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.661][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:55.662][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:55.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.665][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.667][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:55.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:55.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.673][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:55.674][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:55.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.677][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.679][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:55.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:55.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.685][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:55.686][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:55.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.689][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.691][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:55.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:55.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.697][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:55.698][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:55.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.701][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.703][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:55.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:55.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.708][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:55.709][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:55.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.711][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.712][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:55.714][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.716][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.717][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:55.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.722][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:55.723][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:55.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.725][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:55.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:55.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.737][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:55.739][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:55.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.741][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.742][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:55.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:55.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.747][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:55.748][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:55.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.750][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.752][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:55.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:55.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.760][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:55.761][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:55.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.768][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.769][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:55.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:55.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:55.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:55.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:55.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:55.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:55.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:55.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:55.820][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-10-03 21:32:55.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.826][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.831][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 21:32:55.854][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 [2025-10-03 21:32:55.857][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:32:55.861][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-03 21:32:55.862][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:32:55.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:55.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:55.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:55.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:55.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:55.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:55.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:55.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:55.891][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:55.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:55.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:55.898][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:55.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:55.900][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:55.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:55.902][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-10-03 21:32:55.904][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:55.905][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:55.912][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-10-03 21:32:55.913][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:55.915][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:55.916][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:55.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:55.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:55.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:55.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:55.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:55.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:55.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:55.931][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.938][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.940][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:55.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:55.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.946][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:55.947][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:55.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.949][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.950][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:55.952][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:55.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.954][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.955][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:55.956][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:55.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.959][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.960][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:55.961][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:55.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.963][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.965][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:55.966][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:55.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.968][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.969][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:55.971][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:55.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.973][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.974][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:55.975][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:55.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.977][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.979][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:55.980][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:55.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.982][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.984][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:55.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:55.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.988][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:55.989][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:55.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.991][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.993][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:55.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:55.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:55.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:55.997][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:55.999][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:56.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.001][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:56.047][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-10-03 21:32:56.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.062][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:56.072][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:56.073][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:56.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:56.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:56.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:56.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:56.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:56.084][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-10-03 21:32:56.085][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:56.086][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:56.094][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-10-03 21:32:56.097][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:56.099][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:56.100][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:56.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:56.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:56.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:56.109][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:56.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:56.111][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:56.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:56.115][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.116][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.118][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.124][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:56.126][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:56.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.134][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.135][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:56.137][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:56.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.139][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.141][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:56.142][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:56.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.144][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.146][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:56.147][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:56.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.150][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.151][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:56.152][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:56.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.155][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.157][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:56.158][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.160][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.162][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:56.163][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:56.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.166][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.167][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:56.169][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:56.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.171][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.173][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:56.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:56.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.178][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:56.180][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:56.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.182][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.184][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:56.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:56.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.189][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:56.191][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:56.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.193][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:56.246][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-10-03 21:32:56.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:56.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:56.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:56.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:56.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:56.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:56.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:56.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:56.282][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-10-03 21:32:56.283][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:56.285][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:56.290][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-10-03 21:32:56.292][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:56.294][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:56.295][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:56.298][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:56.299][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:56.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:56.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:56.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:56.317][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:56.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:56.320][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.321][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.324][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.330][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:56.331][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:56.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.334][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.335][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:56.337][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:56.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.339][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.341][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:56.342][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:56.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.350][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.351][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:56.353][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:56.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.355][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.356][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:56.358][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:56.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.360][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.361][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:56.362][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.364][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.366][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:56.367][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:56.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.369][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.371][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:56.372][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:56.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.374][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.376][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:56.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:56.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.381][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:56.382][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:56.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.384][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.385][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:56.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:56.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.391][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:56.392][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:56.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.394][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.401][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:56.442][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-10-03 21:32:56.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.457][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.462][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:56.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:56.467][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:56.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:56.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:56.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:56.476][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:56.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:56.482][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-10-03 21:32:56.483][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:56.485][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:56.499][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-10-03 21:32:56.500][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:56.506][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:56.507][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:56.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:56.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:56.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:56.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:56.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:56.518][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:56.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:56.522][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.523][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.526][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.532][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:56.533][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:56.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.535][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.537][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:56.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:56.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.541][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:56.543][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:56.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.545][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.547][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:56.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:56.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.551][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:56.553][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:56.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.561][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.563][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:56.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:56.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.568][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:56.569][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:56.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.571][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.572][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:56.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:56.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.577][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:56.578][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:56.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.580][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.582][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:56.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:56.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.587][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:56.588][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.590][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.592][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:56.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.596][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:56.598][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:56.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.600][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:56.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:56.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.606][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:56.607][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:56.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.609][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.611][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:56.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:56.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.616][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:56.617][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:56.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.619][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.621][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:56.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:56.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.625][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:56.627][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:56.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.629][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.630][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:56.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:56.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.640][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:56.680][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-10-03 21:32:56.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:56.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:56.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:56.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:56.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:56.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:56.705][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:56.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:56.707][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-10-03 21:32:56.708][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:56.710][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:56.719][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-10-03 21:32:56.720][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:56.722][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:56.723][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:56.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:56.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:56.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:56.733][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:56.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:56.735][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:56.736][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.TRACE[2025-10-03 21:32:56.739][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.740][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.742][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.748][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:56.749][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:56.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.758][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.759][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:56.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:56.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.764][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:56.765][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:56.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.767][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.769][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:56.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:56.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.773][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:56.775][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:56.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.777][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.778][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:56.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:56.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.783][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:56.784][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:56.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.786][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.787][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:56.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:56.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.792][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:56.793][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:56.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.795][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.797][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:56.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:56.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.801][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:56.803][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.805][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.806][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:56.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.811][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:56.812][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:56.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.814][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:56.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:56.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.820][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:56.821][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:56.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.824][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.825][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:56.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:56.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.830][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:56.831][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:56.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.833][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.835][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:56.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:56.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.839][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:56.840][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:56.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.843][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.844][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:56.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:56.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.849][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:56.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:56.894][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-10-03 21:32:56.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.904][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:56.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:56.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:56.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:56.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:56.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:56.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:56.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:56.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:56.921][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-10-03 21:32:56.922][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:56.924][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:56.928][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-10-03 21:32:56.930][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:56.931][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:56.933][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:56.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:56.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:56.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:56.948][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:56.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:56.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:56.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:56.954][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.955][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.958][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:56.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:56.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.964][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:56.965][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:56.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.967][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.968][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:56.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:56.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.973][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:56.974][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:56.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.976][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.978][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:56.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:56.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.982][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:56.984][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:56.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.986][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.987][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:56.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:56.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.992][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:56.993][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:56.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:56.995][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:56.997][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:56.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:56.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.001][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:57.003][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:57.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.005][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.006][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:57.007][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.009][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.011][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:57.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.016][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.017][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.019][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.025][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:57.026][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:57.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.029][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.030][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:57.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:57.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.035][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:57.036][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:57.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.038][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.040][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:57.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:57.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.044][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:57.046][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:57.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.048][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.049][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:57.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:57.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:57.099][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-10-03 21:32:57.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:57.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:57.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:57.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:57.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:57.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:57.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:57.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:57.126][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-10-03 21:32:57.133][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:57.135][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:57.143][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-10-03 21:32:57.145][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:57.150][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:57.151][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:57.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:57.155][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:57.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:57.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:57.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:57.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:57.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:57.166][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.168][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.170][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.176][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:57.177][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:57.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.179][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.181][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:57.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:57.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.185][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:57.186][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:57.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.189][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.190][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:57.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:57.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.195][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:57.196][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:57.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.198][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.199][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:57.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:57.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.204][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:57.205][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:57.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.207][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.209][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:57.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:57.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.213][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:57.214][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:57.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.217][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.218][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:57.219][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.221][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.223][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:57.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.227][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.228][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.230][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.237][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:57.238][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:57.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.240][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.242][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:57.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:57.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.246][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:57.247][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:57.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.249][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.251][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:57.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:57.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.255][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:57.257][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:57.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.259][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.260][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:57.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:57.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:57.310][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-10-03 21:32:57.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:57.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:57.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:57.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:57.337][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:57.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:57.339][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:57.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:57.342][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-10-03 21:32:57.343][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:57.345][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:57.349][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-10-03 21:32:57.350][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:57.352][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:57.353][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:57.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:57.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:57.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:57.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:57.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:57.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:57.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:57.368][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.369][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.372][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.378][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:57.379][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:57.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.381][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.382][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:57.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:57.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.387][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:57.388][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:57.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.390][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.392][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:57.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:57.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.397][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:57.398][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:57.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.400][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.401][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:57.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:57.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.406][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:57.407][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:57.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.409][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.411][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:57.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:57.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.416][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:57.417][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:57.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.419][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.420][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:57.422][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.424][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.426][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:57.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.431][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.432][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.434][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.440][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:57.441][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:57.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.443][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.445][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:57.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:57.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.450][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:57.451][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:57.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.453][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.454][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:57.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:57.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.459][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:57.460][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:57.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.462][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.464][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:57.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:57.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:57.529][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-10-03 21:32:57.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:57.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:57.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:57.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:57.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:57.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:57.560][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:57.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:57.564][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-10-03 21:32:57.565][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:57.567][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:57.579][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-10-03 21:32:57.581][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:57.583][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:57.584][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:57.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:57.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:57.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:57.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:57.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:57.596][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:57.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:57.599][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.600][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.603][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.609][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:57.610][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:57.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.613][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.615][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:57.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:57.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.619][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:57.620][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:57.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.623][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.625][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:57.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:57.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.630][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:57.631][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:57.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.634][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:57.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:57.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.641][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:57.643][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:57.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.645][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.646][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:57.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:57.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.653][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:57.655][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:57.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.658][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.660][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:57.661][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.664][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.666][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:57.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.673][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.674][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.677][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.686][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:57.687][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:57.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.690][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.692][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:57.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:57.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.698][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:57.700][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:57.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.703][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.705][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:57.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:57.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.711][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:57.712][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:57.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.715][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.716][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:57.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:57.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:57.777][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-10-03 21:32:57.778][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.783][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:57.792][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:57.793][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:57.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:57.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:57.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:57.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:57.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:57.803][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-10-03 21:32:57.805][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:57.806][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:57.814][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-10-03 21:32:57.820][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:57.821][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:57.826][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:57.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:57.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:57.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:57.835][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:57.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:57.837][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:57.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:57.841][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.842][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.844][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.851][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:57.852][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:57.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.854][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.855][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:57.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:57.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.860][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:57.861][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:57.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.863][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.865][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:57.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:57.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.869][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:57.871][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:57.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.873][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.874][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:57.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:57.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.879][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:57.880][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:57.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.882][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.884][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:57.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:57.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.888][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:57.889][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:57.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.891][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.893][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:57.894][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.896][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.898][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:57.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:57.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.902][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.904][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.906][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:57.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.912][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:57.913][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:57.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.915][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.917][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:57.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:57.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.921][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:57.923][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:57.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.925][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.926][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:57.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:57.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.931][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:57.932][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:57.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.934][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.936][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:57.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:57.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:57.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:57.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:57.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:57.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:57.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:58.009][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-10-03 21:32:58.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.015][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:58.024][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:58.025][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:58.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:58.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:58.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:58.033][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:58.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:58.036][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-10-03 21:32:58.037][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:58.039][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:58.045][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-10-03 21:32:58.046][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:58.047][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:58.049][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:58.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:58.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:58.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:58.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:58.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:58.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:58.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:58.065][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.066][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.068][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.074][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:58.075][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:58.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.078][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.079][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:58.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:58.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.084][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:58.085][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:58.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.087][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.089][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:58.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:58.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.093][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:58.094][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:58.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.097][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.098][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:58.099][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:58.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.101][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.103][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:58.104][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:58.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.106][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.108][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:58.109][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.111][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.112][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:58.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.117][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:58.118][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:58.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.120][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:58.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:58.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.127][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:58.128][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:58.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.130][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.132][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:58.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:58.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.136][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:58.137][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:58.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.140][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.141][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:58.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:58.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.146][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:58.147][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:58.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.149][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:58.206][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-10-03 21:32:58.208][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.217][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:58.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:58.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:58.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:58.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:58.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:58.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:58.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:58.233][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-10-03 21:32:58.234][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:58.236][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:58.242][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-10-03 21:32:58.243][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:58.248][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:58.250][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:58.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:58.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:58.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:58.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:58.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:58.275][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:58.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:58.283][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.288][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.290][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.300][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:58.306][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:58.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.308][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.313][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:58.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:58.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.322][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:58.323][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:58.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.326][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.331][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:58.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:58.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.340][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:58.344][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:58.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.346][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.352][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:58.353][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:58.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.359][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.361][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:58.362][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:58.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.364][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.369][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:58.371][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.373][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.374][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:58.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.379][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:58.380][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:58.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.382][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:58.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:58.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.389][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:58.390][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:58.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.392][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.394][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:58.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:58.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.398][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:58.400][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:58.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.402][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.403][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:58.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:58.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.408][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:58.409][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:58.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.411][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:58.465][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-10-03 21:32:58.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.471][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:58.480][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:58.481][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:58.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:58.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:58.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:58.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:58.490][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[2025-10-03 21:32:58.492][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-10-03 21:32:58.493][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:58.494][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:58.501][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-10-03 21:32:58.503][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:58.504][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:58.506][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:58.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:58.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:58.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:58.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:58.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:58.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:58.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:58.521][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.522][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.524][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.530][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:58.532][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:58.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.534][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.539][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:58.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:58.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.545][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:58.546][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:58.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.551][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.552][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:58.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:58.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.565][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:58.566][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:58.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.569][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.573][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:58.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:58.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.583][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:58.587][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:58.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.589][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.591][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:58.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:58.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.595][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:58.597][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:58.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.599][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.600][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:58.601][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.603][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.605][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:58.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.609][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:58.611][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:58.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.613][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:58.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:58.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.619][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:58.620][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:58.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.622][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.624][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:58.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:58.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.629][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:58.630][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:58.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.632][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.633][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:58.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:58.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.638][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:58.639][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:58.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.641][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.643][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:58.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:58.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:58.699][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-10-03 21:32:58.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.704][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.709][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:58.713][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:58.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:58.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:58.721][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:58.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:58.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:58.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:58.725][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-10-03 21:32:58.726][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:58.728][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:58.736][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-10-03 21:32:58.738][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:58.739][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:58.740][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:58.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:58.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:58.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:58.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:58.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:58.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:58.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:58.755][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.756][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.759][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.765][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:58.766][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:58.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.768][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.769][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:58.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:58.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.774][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:58.775][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:58.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.777][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.778][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:58.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:58.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.783][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:58.784][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:58.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.786][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.788][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:58.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:58.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.792][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:58.794][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:58.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.796][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.797][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:58.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:58.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.802][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:58.803][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:58.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.805][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.807][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:58.808][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.810][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.811][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:58.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.816][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:58.817][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:58.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.819][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:58.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:58.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.826][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:58.827][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:58.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.829][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.831][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:58.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:58.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.835][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:58.836][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:58.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.839][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.840][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:58.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:58.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.845][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:58.846][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:58.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.854][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.856][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:58.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:58.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:58.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:58.906][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-10-03 21:32:58.907][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.916][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:58.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:58.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:58.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:58.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:58.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:58.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:58.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:58.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:58.932][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-10-03 21:32:58.933][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:58.935][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:58.948][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-10-03 21:32:58.952][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:58.954][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:58.956][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:58.958][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:58.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:58.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:58.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:58.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:58.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:58.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:58.972][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.974][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.976][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:58.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:58.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.982][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:58.983][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:58.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.985][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.987][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:58.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:58.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.991][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:58.993][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:58.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:58.995][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:58.996][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:58.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:58.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.001][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:59.002][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:59.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.004][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:59.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:59.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.010][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.012][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.014][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.015][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.020][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:59.021][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:59.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.024][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.025][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:59.026][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.029][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.030][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:59.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.035][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.036][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.038][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.044][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:59.045][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:59.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.048][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.049][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:59.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:59.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.060][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:59.062][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:59.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.064][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.066][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:59.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:59.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.070][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:59.071][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:59.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.074][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.076][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:59.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:59.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:59.127][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-10-03 21:32:59.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:59.143][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:59.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:59.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:59.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:59.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:59.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:59.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:59.155][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-10-03 21:32:59.156][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:59.158][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:59.163][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-10-03 21:32:59.164][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:59.166][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:59.167][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:59.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:59.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:59.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:59.176][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:59.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:59.178][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:59.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:59.183][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.188][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.190][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.198][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:59.200][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:59.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.203][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.204][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:59.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:59.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.209][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:59.210][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:59.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.212][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.214][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:59.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:59.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.219][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:59.220][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:59.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.227][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.229][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:59.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:59.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.233][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.234][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.237][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.238][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.243][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:59.244][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:59.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.246][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.248][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:59.249][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.251][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.253][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:59.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.257][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.259][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.261][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.273][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:59.274][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:59.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.276][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.278][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:59.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:59.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.282][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:59.284][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:59.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.286][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.287][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:59.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:59.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.292][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:59.293][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:59.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.295][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.296][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:59.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:59.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:59.346][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-10-03 21:32:59.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.356][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:59.361][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:59.362][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:59.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:59.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:59.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:59.370][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:59.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:59.372][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-10-03 21:32:59.374][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:59.375][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:59.380][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-10-03 21:32:59.381][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:59.383][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:59.384][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:59.386][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:59.387][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:59.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:59.393][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:59.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:59.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:59.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:59.399][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.400][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.402][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.408][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:59.410][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:59.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.412][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.413][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:59.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:59.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.418][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:59.419][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:59.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.421][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.423][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:59.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:59.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.428][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:59.429][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:59.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.431][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.433][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:59.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:59.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.437][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.438][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.441][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.442][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.447][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:59.448][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:59.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.450][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.451][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:59.459][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.461][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.463][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:59.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.468][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.469][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.472][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.479][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:59.480][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:59.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.483][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.485][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:59.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:59.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.491][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:59.493][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:59.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.496][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.498][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:59.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:59.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.504][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:59.505][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:59.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.508][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.510][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:59.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:59.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:59.575][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-10-03 21:32:59.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.582][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:59.594][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:59.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:59.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:59.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:59.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:59.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:59.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:59.609][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-10-03 21:32:59.611][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:59.613][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:59.621][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-10-03 21:32:59.623][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:59.625][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:59.627][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:59.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:59.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:59.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:59.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:59.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:59.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:59.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:59.661][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.667][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.669][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.679][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:59.680][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:59.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.683][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.684][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:59.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:59.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.689][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:59.690][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:59.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.692][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.694][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:59.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:59.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.699][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:59.700][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:59.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.702][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.703][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:59.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:59.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.708][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.709][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.718][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.720][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.724][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:59.726][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:59.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.728][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.729][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:59.730][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.732][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.734][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:59.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.738][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.740][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.742][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.748][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:59.749][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:59.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.751][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.753][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:59.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:59.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.758][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:59.759][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:59.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.761][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.763][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:59.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:59.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.767][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:59.769][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:59.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.771][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.773][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:59.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:59.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.778][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:32:59.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:59.828][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-10-03 21:32:59.829][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:32:59.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:59.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:59.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:59.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:59.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:59.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:59.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:32:59.854][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-10-03 21:32:59.856][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:32:59.857][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:32:59.865][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-10-03 21:32:59.870][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:32:59.872][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:32:59.873][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:32:59.878][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:32:59.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:32:59.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:32:59.890][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:32:59.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:32:59.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:32:59.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:32:59.896][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.898][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.900][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:32:59.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:32:59.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.906][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:59.907][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:59.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.910][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.911][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:32:59.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:32:59.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.916][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:59.917][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:59.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.919][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.921][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:32:59.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:32:59.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.932][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:59.933][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:59.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.935][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.936][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:32:59.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:32:59.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.941][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.942][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.944][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.946][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:32:59.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.950][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:59.951][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:32:59.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.954][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.955][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:59.956][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.958][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.960][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:32:59.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:32:59.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.964][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.966][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.968][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:32:59.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.975][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:59.976][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:59.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.979][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.981][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:32:59.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:32:59.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.986][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:59.987][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:59.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.989][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.991][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:32:59.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:32:59.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:32:59.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:32:59.997][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:32:59.998][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:32:59.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.000][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.002][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:33:00.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:33:00.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:00.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:00.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:00.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:00.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:00.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:00.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:00.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:00.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:00.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:00.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:00.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:00.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:00.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:00.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:00.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:00.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:00.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:00.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:00.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:00.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.054][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-10-03 21:33:00.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 21:33:00.094][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 21:33:00.098][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:00.103][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-03 21:33:00.104][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:00.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.110][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.118][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.123][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.147][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.148][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.184][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.196][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.204][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.218][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.249][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.251][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.259][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.276][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.282][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.288][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.294][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.295][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.326][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.376][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.382][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.388][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.394][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.409][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.433][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.434][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.442][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.471][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.491][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.494][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.504][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.517][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.519][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.528][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.531][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.577][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.592][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.601][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.605][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.608][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.628][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.638][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.665][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.678][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.695][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.714][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.721][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.722][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.743][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.755][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.770][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.782][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.800][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.849][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:00.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:00.856][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:00.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:00.864][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:00.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:00.867][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:00.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:00.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:00.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:00.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:00.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:00.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:00.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:00.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:00.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:00.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:00.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:00.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:00.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:00.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:00.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 21:33:00.987][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 21:33:00.991][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:00.994][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-10-03 21:33:00.996][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-03 21:33:01.000][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 21:33:01.004][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:01.008][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-10-03 21:33:01.009][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:01.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:01.028][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-10-03 21:33:01.029][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:33:01.031][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:33:01.038][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-10-03 21:33:01.039][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:33:01.041][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:33:01.043][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:33:01.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.062][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:01.063][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:01.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.066][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:01.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:01.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.074][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:33:01.075][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:33:01.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.078][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.080][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:33:01.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:33:01.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.086][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:33:01.087][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:33:01.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.090][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.092][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:33:01.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:33:01.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.098][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:33:01.100][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:33:01.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.102][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.104][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:33:01.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:33:01.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.110][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:33:01.112][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:33:01.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.114][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.116][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:33:01.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:33:01.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.122][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:01.124][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:01.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.126][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.128][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:01.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:01.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.134][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:33:01.136][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:01.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.138][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.139][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:33:01.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:01.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.144][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.145][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.153][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.160][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:33:01.161][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:33:01.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.163][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.165][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:33:01.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:33:01.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.169][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:33:01.170][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:33:01.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.172][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.174][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:33:01.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:33:01.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.178][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:33:01.180][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:33:01.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.182][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.183][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:33:01.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:33:01.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:01.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:01.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:01.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:01.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:01.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:01.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:01.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:01.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:01.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:01.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:01.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:01.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:01.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:01.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:01.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:01.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:01.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:01.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:01.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:01.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.233][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-10-03 21:33:01.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.249][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.273][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.274][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.280][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.282][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:01.284][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-10-03 21:33:01.285][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:33:01.287][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:33:01.291][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-10-03 21:33:01.293][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:33:01.294][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:33:01.295][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:33:01.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.307][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.311][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:01.312][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:01.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.314][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:01.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:01.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.320][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:33:01.321][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:33:01.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.323][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.325][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:33:01.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:33:01.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.330][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:33:01.331][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:33:01.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.339][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.341][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:33:01.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:33:01.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.346][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:33:01.347][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:33:01.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.349][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.351][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:33:01.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:33:01.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.355][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:33:01.357][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:33:01.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.359][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.360][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:33:01.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:33:01.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.365][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:01.366][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:01.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.368][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.369][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:33:01.370][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:01.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.373][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.374][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:33:01.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:01.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.379][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.380][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.382][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.388][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:33:01.389][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:33:01.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.391][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.393][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:33:01.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:33:01.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.397][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:33:01.399][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:33:01.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.401][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.402][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:33:01.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:33:01.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.407][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:33:01.408][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:33:01.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.410][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.412][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:33:01.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:33:01.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:01.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:01.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:01.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:01.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:01.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:01.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:01.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:01.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:01.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:01.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:01.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:01.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:01.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:01.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:01.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:01.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:01.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:01.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:01.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:01.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.461][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-10-03 21:33:01.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.471][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 21:33:01.495][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 21:33:01.498][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:01.502][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-03 21:33:01.503][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:01.506][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.507][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.513][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.539][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.617][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.633][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.651][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.667][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.676][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.699][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.701][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.703][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.730][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.748][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.749][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.756][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.774][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.781][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.783][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.800][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.806][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.810][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.815][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.825][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.833][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.849][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.850][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.914][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.916][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.918][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.941][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.943][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.958][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.964][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:01.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:01.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:01.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:01.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:01.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:01.991][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:01.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:01.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:01.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:01.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:01.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 21:33:02.083][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 21:33:02.087][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:02.091][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-03 21:33:02.092][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:02.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.096][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.111][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.128][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.156][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.157][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.163][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.165][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.182][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.192][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.226][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.227][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.286][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.296][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.312][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.313][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.339][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.346][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.366][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.376][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.392][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.399][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.427][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.438][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.444][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.453][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.455][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.495][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.497][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.525][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.535][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.591][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.592][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.603][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.617][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.618][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.626][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.629][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.633][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.638][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.650][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:02.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.691][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-03 21:33:02.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-03 21:33:02.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-03 21:33:02.703][biodb::testThat]
biodb.INFO [2025-10-03 21:33:02.705][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-10-03 21:33:02.706][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:33:02.707][biodb::testThat]
biodb.TRACE[2025-10-03 21:33:02.710][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-03 21:33:02.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-03 21:33:02.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.737][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 21:33:02.750][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 21:33:02.753][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:02.755][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-03 21:33:02.757][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:02.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.783][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.792][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 21:33:02.797][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 21:33:02.800][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:02.803][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-03 21:33:02.804][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:02.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.807][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.814][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.842][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.844][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.849][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.854][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:02.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:02.866][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-03 21:33:02.868][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:02.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.889][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:02.890][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 21:33:02.891][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 21:33:02.892][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 21:33:02.893][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:02.895][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.896][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.898][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.899][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.900][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.902][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.904][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:02.905][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:02.906][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.907][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.909][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.910][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 21:33:02.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.921][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.942][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-03 21:33:02.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:02.945][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:02.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:02.952][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:02.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:02.955][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:02.956][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.TRACE[2025-10-03 21:33:02.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.970][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:02.972][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 21:33:02.973][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 21:33:02.974][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 21:33:02.976][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:02.977][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.979][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.982][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.983][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.985][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.988][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.989][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:02.991][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:02.992][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.994][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:02.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:02.996][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:02.998][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 21:33:02.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.018][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-03 21:33:03.019][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:03.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:03.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:03.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:03.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:03.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:03.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:03.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.046][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.047][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 21:33:03.048][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 21:33:03.050][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 21:33:03.051][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.053][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.054][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.057][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.059][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.060][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.063][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.066][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.068][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.069][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.071][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.074][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.075][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 21:33:03.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.102][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-03 21:33:03.104][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-03 21:33:03.105][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-03 21:33:03.119][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:03.236][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:03.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:03.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:03.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:03.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:03.248][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:03.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 21:33:03.253][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 21:33:03.258][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:03.264][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-03 21:33:03.266][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-03 21:33:03.269][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 21:33:03.272][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:03.279][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-03 21:33:03.280][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:03.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:03.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:03.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:03.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:03.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:03.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:03.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:03.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:03.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:03.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:03.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:03.337][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:03.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:03.340][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:03.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:03.343][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:03.361][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:03.363][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:03.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:03.371][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:03.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:03.373][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:03.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:03.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:03.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:03.434][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-03 21:33:03.474][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:03.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:03.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:03.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:03.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:03.487][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:03.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:03.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.501][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.503][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 21:33:03.504][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 21:33:03.506][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 21:33:03.507][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.509][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.510][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.513][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.515][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.516][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.519][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.521][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.522][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.523][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.525][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.527][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.529][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 21:33:03.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.542][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.549][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-03 21:33:03.550][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:03.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:03.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:03.568][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:03.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:03.570][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:03.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:03.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.630][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.631][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 21:33:03.632][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 21:33:03.633][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 21:33:03.634][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.636][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.637][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.639][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.640][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.642][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.644][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.645][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.657][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.659][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.660][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.662][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.663][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 21:33:03.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.679][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-03 21:33:03.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:03.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:03.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:03.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:03.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:03.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:03.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:03.692][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.701][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.702][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 21:33:03.703][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 21:33:03.704][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 21:33:03.705][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.706][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.708][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.710][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.711][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.712][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.714][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.716][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.717][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.718][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.719][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.721][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.723][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 21:33:03.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.744][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-03 21:33:03.746][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-03 21:33:03.747][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-03 21:33:03.757][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-03 21:33:03.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-03 21:33:03.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-03 21:33:03.765][biodb::testThat]
biodb.INFO [2025-10-03 21:33:03.766][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-10-03 21:33:03.767][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:33:03.768][biodb::testThat]
biodb.TRACE[2025-10-03 21:33:03.771][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-03 21:33:03.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-03 21:33:03.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:03.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:03.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:03.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:03.804][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:03.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:03.806][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:03.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 21:33:03.811][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 21:33:03.814][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:03.816][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-03 21:33:03.818][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:03.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:03.822][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:03.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:03.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:03.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:03.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:03.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:03.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.844][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 21:33:03.851][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 21:33:03.855][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:03.858][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-03 21:33:03.859][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:03.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:03.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:03.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:03.872][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:03.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:03.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:03.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:03.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.890][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:03.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:03.897][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:03.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:03.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:03.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:03.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:03.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:03.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.917][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:03.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:03.930][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-03 21:33:03.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:03.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:03.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:03.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:03.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:03.944][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:03.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:03.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.975][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.976][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 21:33:03.977][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 21:33:03.978][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 21:33:03.979][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.980][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.981][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.984][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.985][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.986][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.988][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.989][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.990][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:03.991][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.993][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:03.995][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:03.996][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 21:33:03.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:03.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.011][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-03 21:33:04.012][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.013][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:04.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.033][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.034][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 21:33:04.035][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 21:33:04.036][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 21:33:04.037][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.038][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.040][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.042][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.043][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.044][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.046][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.047][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.049][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.050][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.051][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.053][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.054][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 21:33:04.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.069][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-03 21:33:04.070][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.071][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.078][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.080][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:04.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.091][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.092][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 21:33:04.093][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 21:33:04.094][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 21:33:04.096][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.097][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.098][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.100][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.101][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.102][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.105][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.106][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.107][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.108][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.109][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.111][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.113][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 21:33:04.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.128][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-03 21:33:04.129][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-03 21:33:04.130][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-03 21:33:04.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:04.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.177][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 21:33:04.181][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 21:33:04.184][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:04.186][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-03 21:33:04.187][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-03 21:33:04.191][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 21:33:04.193][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:04.196][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-03 21:33:04.197][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:04.200][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.207][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:04.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:04.226][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.227][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:04.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:04.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:04.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:04.277][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-03 21:33:04.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.280][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:04.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.300][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.301][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 21:33:04.302][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 21:33:04.303][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 21:33:04.304][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.305][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.307][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.309][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.310][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.311][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.313][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.314][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.316][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.317][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.318][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.320][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.321][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 21:33:04.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.344][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-03 21:33:04.345][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.346][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:04.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.366][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.367][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 21:33:04.368][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 21:33:04.369][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 21:33:04.370][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.371][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.373][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.375][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.376][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.377][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.379][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.380][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.382][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.383][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.384][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.386][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.387][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 21:33:04.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.402][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-03 21:33:04.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.413][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:04.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.424][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.425][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 21:33:04.426][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 21:33:04.428][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 21:33:04.429][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.430][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.431][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.433][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.434][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.435][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.438][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.439][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.440][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.441][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.442][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.444][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.445][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 21:33:04.447][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.461][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-03 21:33:04.462][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-03 21:33:04.463][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-03 21:33:04.472][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-03 21:33:04.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-03 21:33:04.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-03 21:33:04.480][biodb::testThat]
biodb.INFO [2025-10-03 21:33:04.481][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-10-03 21:33:04.482][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:33:04.483][biodb::testThat]
biodb.TRACE[2025-10-03 21:33:04.487][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-03 21:33:04.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-03 21:33:04.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.500][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.505][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:04.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.522][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 21:33:04.545][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 21:33:04.547][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:04.550][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-03 21:33:04.551][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:04.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.561][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.563][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:04.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.570][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 21:33:04.580][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 21:33:04.583][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:04.586][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-03 21:33:04.587][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:04.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:04.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.609][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:04.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:04.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:04.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:04.645][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-03 21:33:04.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:04.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.668][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.669][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 21:33:04.670][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 21:33:04.671][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 21:33:04.672][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.673][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.675][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.677][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.678][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.679][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.681][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.682][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.684][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.685][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.686][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.688][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.689][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 21:33:04.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.712][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-03 21:33:04.713][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:04.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.734][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.735][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 21:33:04.736][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 21:33:04.737][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 21:33:04.738][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.739][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.740][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.742][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.744][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.745][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.747][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.748][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.749][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.750][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.751][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.754][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.755][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 21:33:04.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.770][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-03 21:33:04.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.772][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:04.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.792][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.793][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 21:33:04.794][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 21:33:04.795][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 21:33:04.796][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.797][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.798][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.801][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.802][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.803][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.805][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.806][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.807][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:04.808][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.810][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.812][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.813][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 21:33:04.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:04.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.828][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-03 21:33:04.829][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-03 21:33:04.830][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-03 21:33:04.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:04.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.887][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 21:33:04.894][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 21:33:04.897][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:04.899][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-03 21:33:04.900][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-03 21:33:04.903][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 21:33:04.906][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:04.909][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-03 21:33:04.910][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:04.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.920][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.922][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:04.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:04.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.947][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:04.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.954][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:04.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.964][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:04.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:04.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:04.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:04.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:04.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:04.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:04.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:04.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:04.993][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-03 21:33:04.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:04.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:04.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:05.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:05.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:05.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:05.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:05.020][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.042][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:05.043][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 21:33:05.044][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 21:33:05.050][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 21:33:05.051][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:05.056][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.057][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.062][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.064][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.070][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.077][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.078][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:05.084][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:05.085][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.087][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.094][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.095][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 21:33:05.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.122][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.128][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-03 21:33:05.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:05.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:05.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:05.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:05.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:05.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:05.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:05.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.163][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:05.165][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 21:33:05.166][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 21:33:05.168][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 21:33:05.169][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:05.170][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.172][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.174][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.175][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.177][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.179][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.180][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:05.181][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:05.182][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.183][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.186][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.187][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 21:33:05.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.198][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.203][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-03 21:33:05.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:05.205][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:05.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:05.212][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:05.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:05.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:05.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:05.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.226][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:05.227][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 21:33:05.228][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 21:33:05.229][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 21:33:05.230][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:05.232][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.233][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.235][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.236][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.238][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.240][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.241][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:05.242][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 21:33:05.243][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.244][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.247][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.248][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 21:33:05.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.254][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.263][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-03 21:33:05.264][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-03 21:33:05.265][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-03 21:33:05.287][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-03 21:33:05.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-03 21:33:05.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-03 21:33:05.295][biodb::testThat]
biodb.INFO [2025-10-03 21:33:05.296][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-10-03 21:33:05.297][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:33:05.299][biodb::testThat]
biodb.DEBUG[2025-10-03 21:33:05.305][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-10-03 21:33:05.306][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:33:05.309][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:33:05.314][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-10-03 21:33:05.318][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:33:05.325][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:33:05.328][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:33:05.331][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:05.332][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:05.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:05.341][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:05.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:05.345][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:05.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:05.350][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.352][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.355][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.363][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:33:05.364][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:33:05.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.367][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.369][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:33:05.371][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:33:05.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.381][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.384][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:33:05.385][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:33:05.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.388][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.390][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:33:05.391][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:33:05.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.393][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.395][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:05.396][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:05.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.398][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.400][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:33:05.401][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:05.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.404][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.405][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:05.406][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:05.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.408][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.410][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:33:05.411][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:33:05.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.414][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.416][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:33:05.417][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:33:05.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.420][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.421][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:33:05.423][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:33:05.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.426][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:05.483][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-10-03 21:33:05.484][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-10-03 21:33:05.494][biodb::testThat]
biodb.INFO [2025-10-03 21:33:05.496][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-10-03 21:33:05.497][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:33:05.499][biodb::testThat]
biodb.DEBUG[2025-10-03 21:33:05.514][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-10-03 21:33:05.515][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-10-03 21:33:05.517][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-10-03 21:33:05.519][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:33:05.525][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-10-03 21:33:05.530][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-10-03 21:33:05.542][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-10-03 21:33:05.544][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:33:05.548][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-10-03 21:33:05.549][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-10-03 21:33:05.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:05.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:05.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:05.575][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:05.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:05.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:05.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:05.588][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.589][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.596][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.611][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:33:05.616][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:33:05.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.619][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.620][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:33:05.626][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:33:05.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.628][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.633][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:33:05.634][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:33:05.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.641][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.646][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:33:05.648][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:33:05.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.657][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.659][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:05.660][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:05.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.667][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.668][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:33:05.670][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:05.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.677][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.678][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:05.690][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:05.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.693][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.695][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:33:05.697][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:33:05.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.699][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.701][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:33:05.702][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:33:05.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.704][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.706][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:33:05.707][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:33:05.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.711][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:05.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:05.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:05.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:05.771][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:05.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:05.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:05.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:05.780][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.781][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.784][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.793][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:33:05.795][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:33:05.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.798][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.800][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:33:05.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:33:05.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.806][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:33:05.807][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:33:05.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.810][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.813][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:33:05.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:33:05.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.818][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:33:05.819][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:33:05.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.822][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.824][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:33:05.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:33:05.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.829][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:33:05.830][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:33:05.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.832][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.834][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:33:05.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:33:05.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.839][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:05.840][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:05.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.842][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.844][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:05.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:05.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.849][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:33:05.850][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:05.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.853][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.854][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:33:05.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:05.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.859][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:05.861][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:05.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.863][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:05.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:05.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.870][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:33:05.871][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:33:05.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.874][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.875][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:33:05.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:33:05.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.881][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:33:05.882][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:33:05.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.884][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.886][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:33:05.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:33:05.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.891][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:33:05.892][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:33:05.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.895][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.896][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:33:05.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:33:05.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:05.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:05.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:05.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:05.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:05.951][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:05.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:05.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:05.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:05.957][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.959][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.961][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:05.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:05.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.968][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:33:05.969][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:33:05.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.971][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.973][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:33:05.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:33:05.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.978][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:33:05.979][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:33:05.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.981][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.983][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:33:05.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:33:05.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.988][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:33:05.989][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:33:05.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.992][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.994][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:33:05.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:33:05.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:05.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:05.999][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:33:06.000][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:33:06.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.002][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.004][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:33:06.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:33:06.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.009][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:06.010][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:06.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.012][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.014][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:06.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:06.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.019][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:33:06.020][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:06.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.023][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.024][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:33:06.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:06.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.029][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:06.030][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:06.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.033][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:06.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:06.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.039][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:33:06.041][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:33:06.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.043][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.045][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:33:06.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:33:06.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.050][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:33:06.051][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:33:06.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.053][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.055][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:33:06.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:33:06.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.060][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:33:06.062][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:33:06.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.064][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.065][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:33:06.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:33:06.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:06.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:06.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:06.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:06.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:06.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:06.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:06.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:06.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:06.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:06.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:06.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:06.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:06.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:06.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:06.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:06.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:06.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:06.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:06.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:06.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:06.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:06.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:06.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:06.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:06.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:06.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:06.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:06.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:06.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:06.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:06.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:06.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:06.159][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-10-03 21:33:06.160][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-10-03 21:33:06.161][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-10-03 21:33:06.176][biodb::testThat]
biodb.INFO [2025-10-03 21:33:06.178][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-10-03 21:33:06.179][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:33:06.180][biodb::testThat]
biodb.INFO [2025-10-03 21:33:06.208][biodb::testThat]
biodb.INFO [2025-10-03 21:33:06.210][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-10-03 21:33:06.211][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:33:06.212][biodb::testThat]
biodb.INFO [2025-10-03 21:33:06.222][biodb::testThat]
biodb.INFO [2025-10-03 21:33:06.223][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-10-03 21:33:06.224][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:33:06.225][biodb::testThat]
sched.DEBUG[2025-10-03 21:33:06.228][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-10-03 21:33:06.232][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:06.239][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-10-03 21:33:06.240][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-03 21:33:06.255][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:33:06.256][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:33:06.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.259][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:06.260][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:06.261][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:06.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:06.263][ef$get] fields variable is a list.
biodb.INFO [2025-10-03 21:33:06.265][biodb::testThat]
biodb.INFO [2025-10-03 21:33:06.266][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-10-03 21:33:06.268][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:33:06.268][biodb::testThat]
biodb.ERROR[2025-10-03 21:33:06.284][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-10-03 21:33:06.303][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-10-03 21:33:06.325][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-03 21:33:06.327][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-03 21:33:06.328][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-03 21:33:06.329][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:06.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:06.331][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:06.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:06.333][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-03 21:33:06.346][biodb::testContext]
biodb.INFO [2025-10-03 21:33:06.348][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-03 21:33:06.349][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-10-03 21:33:06.350][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-03 21:33:06.351][biodb::testContext]
biodb.INFO [2025-10-03 21:33:06.353][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-03 21:33:06.355][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-03 21:33:06.359][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 21:33:06.360][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-03 21:33:06.361][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-03 21:33:06.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.365][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-03 21:33:06.366][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-03 21:33:06.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.370][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-03 21:33:06.371][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-03 21:33:06.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.374][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-03 21:33:06.375][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-03 21:33:06.376][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-03 21:33:06.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.380][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-03 21:33:06.381][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-03 21:33:06.382][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-03 21:33:06.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.386][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-03 21:33:06.387][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-03 21:33:06.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.390][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-03 21:33:06.391][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-03 21:33:06.392][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-03 21:33:06.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.395][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[2025-10-03 21:33:06.396][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-03 21:33:06.397][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-03 21:33:06.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.402][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-03 21:33:06.403][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-03 21:33:06.404][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-03 21:33:06.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.406][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[2025-10-03 21:33:06.407][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-03 21:33:06.409][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-03 21:33:06.411][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-03 21:33:06.412][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-03 21:33:06.413][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-03 21:33:06.414][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-03 21:33:06.415][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.418][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-03 21:33:06.419][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-03 21:33:06.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.422][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[2025-10-03 21:33:06.423][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-03 21:33:06.424][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-03 21:33:06.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.428][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-03 21:33:06.430][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-03 21:33:06.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.433][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-03 21:33:06.434][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-03 21:33:06.435][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-03 21:33:06.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.439][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-03 21:33:06.440][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-03 21:33:06.444][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-03 21:33:06.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.449][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-03 21:33:06.450][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-03 21:33:06.451][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-03 21:33:06.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.454][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-03 21:33:06.456][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:06.457][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-03 21:33:06.458][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:06.459][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:33:06.460][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:06.461][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:33:06.462][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:06.463][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 21:33:06.464][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-03 21:33:06.465][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:33:06.466][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:06.467][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-03 21:33:06.468][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:33:06.469][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:06.470][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:06.471][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 21:33:06.471][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 21:33:06.471][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 21:33:06.471][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-03 21:33:06.471][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-03 21:33:06.472][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 21:33:06.473][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:06.474][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:06.475][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:33:06.476][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:06.477][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:06.478][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:33:06.479][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:06.485][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:33:06.486][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:33:06.487][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:06.489][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:06.490][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-03 21:33:06.492][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:06.493][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-03 21:33:06.494][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:06.495][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:33:06.496][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:06.497][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:33:06.498][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:06.499][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 21:33:06.500][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-03 21:33:06.501][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:33:06.502][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:06.503][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-03 21:33:06.504][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:33:06.505][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:06.506][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:06.507][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 21:33:06.507][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 21:33:06.507][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 21:33:06.507][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-03 21:33:06.507][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-03 21:33:06.508][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 21:33:06.509][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:06.510][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:06.511][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:33:06.512][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:06.513][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:06.514][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:33:06.515][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:06.516][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:33:06.517][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:33:06.518][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:06.519][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:06.520][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-03 21:33:06.522][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:06.523][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-03 21:33:06.524][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:06.525][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:33:06.526][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:06.527][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:33:06.529][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:06.530][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 21:33:06.531][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-03 21:33:06.532][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:33:06.534][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:06.535][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-03 21:33:06.536][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:33:06.537][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:06.538][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:06.540][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:06.541][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 21:33:06.542][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:06.543][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:06.545][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:33:06.546][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:06.547][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:06.548][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:33:06.549][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:06.551][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:33:06.552][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:33:06.553][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:06.554][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:06.556][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-03 21:33:06.558][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:06.559][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-03 21:33:06.560][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:06.561][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:33:06.563][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:06.564][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:33:06.565][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:06.566][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 21:33:06.568][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-03 21:33:06.569][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:33:06.570][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:06.571][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-03 21:33:06.573][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:33:06.574][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:06.575][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:06.576][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:06.578][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 21:33:06.579][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:06.580][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:06.581][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:33:06.582][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:06.583][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:06.585][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:33:06.586][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:06.587][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:33:06.588][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:33:06.589][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:06.590][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:06.592][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 21:33:06.593][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.594][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[2025-10-03 21:33:06.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:06.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:06.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:06.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:06.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:06.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:06.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:06.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:06.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:06.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:06.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:06.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:06.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:06.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:06.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.633][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.DEBUG[2025-10-03 21:33:06.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:06.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:06.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:06.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:06.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:06.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:06.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.649][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[2025-10-03 21:33:06.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:06.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:06.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.655][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[2025-10-03 21:33:06.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:06.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:06.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:06.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:06.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.673][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[2025-10-03 21:33:06.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:06.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:06.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.678][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[2025-10-03 21:33:06.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:06.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:06.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:06.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:06.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:06.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:06.690][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-03 21:33:06.692][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-03 21:33:06.694][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-03 21:33:06.696][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-03 21:33:06.697][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-03 21:33:06.699][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-03 21:33:06.701][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-03 21:33:06.703][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-03 21:33:06.704][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-03 21:33:06.706][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-03 21:33:06.708][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-03 21:33:06.709][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-03 21:33:06.711][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-03 21:33:06.713][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-03 21:33:06.714][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-03 21:33:06.716][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-03 21:33:06.718][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-03 21:33:06.720][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-03 21:33:06.721][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-03 21:33:06.723][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-03 21:33:06.725][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-03 21:33:06.726][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-03 21:33:06.728][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-03 21:33:06.730][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-03 21:33:06.732][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-03 21:33:06.733][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-03 21:33:06.735][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-03 21:33:06.737][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-03 21:33:06.738][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-03 21:33:06.740][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-03 21:33:06.742][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-03 21:33:06.743][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-03 21:33:06.745][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-03 21:33:06.747][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-03 21:33:06.749][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-03 21:33:06.750][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-03 21:33:06.752][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-03 21:33:06.754][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-03 21:33:06.755][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-03 21:33:06.757][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-03 21:33:06.759][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-03 21:33:06.760][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-03 21:33:06.763][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-03 21:33:06.765][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-03 21:33:06.771][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-03 21:33:06.777][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-03 21:33:06.779][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-03 21:33:06.786][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-03 21:33:06.792][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-03 21:33:06.794][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-03 21:33:06.796][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-03 21:33:06.802][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-03 21:33:06.808][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-03 21:33:06.810][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-03 21:33:06.813][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-03 21:33:06.815][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-03 21:33:06.817][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-03 21:33:06.818][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-03 21:33:06.820][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-03 21:33:06.822][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-03 21:33:06.823][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-03 21:33:06.825][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-03 21:33:06.831][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-03 21:33:06.833][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-03 21:33:06.834][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-03 21:33:06.836][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-03 21:33:06.838][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-03 21:33:06.839][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-03 21:33:06.841][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-03 21:33:06.843][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-03 21:33:06.844][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-03 21:33:06.846][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-03 21:33:06.851][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-03 21:33:06.853][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-03 21:33:06.859][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-03 21:33:06.861][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-03 21:33:06.863][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-03 21:33:06.865][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-03 21:33:06.867][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-03 21:33:06.868][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-03 21:33:06.870][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-03 21:33:06.872][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-03 21:33:06.873][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-03 21:33:06.877][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-03 21:33:06.884][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-03 21:33:06.885][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 21:33:06.887][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:06.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:06.892][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:06.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.111][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[2025-10-03 21:33:07.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.158][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[2025-10-03 21:33:07.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.165][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[2025-10-03 21:33:07.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.172][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[2025-10-03 21:33:07.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.179][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[2025-10-03 21:33:07.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.186][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[2025-10-03 21:33:07.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.193][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[2025-10-03 21:33:07.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.211][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[2025-10-03 21:33:07.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.219][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-03 21:33:07.221][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-03 21:33:07.223][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:07.224][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-03 21:33:07.225][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:07.227][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:33:07.228][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:07.229][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:33:07.230][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:07.231][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-03 21:33:07.232][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-03 21:33:07.233][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:33:07.234][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:07.235][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-03 21:33:07.237][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:33:07.238][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-03 21:33:07.238][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-03 21:33:07.238][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-03 21:33:07.238][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-03 21:33:07.238][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-03 21:33:07.238][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-03 21:33:07.238][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-03 21:33:07.238][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-03 21:33:07.238][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-03 21:33:07.238][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-03 21:33:07.238][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-03 21:33:07.239][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:07.240][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 21:33:07.240][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 21:33:07.240][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 21:33:07.241][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-03 21:33:07.242][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:07.243][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:07.244][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:33:07.245][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:07.246][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:07.247][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:33:07.249][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-03 21:33:07.249][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-03 21:33:07.250][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:33:07.251][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:33:07.252][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:07.253][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-03 21:33:07.253][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-03 21:33:07.260][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-03 21:33:07.262][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-03 21:33:07.263][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-03 21:33:07.265][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-03 21:33:07.267][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-03 21:33:07.269][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-03 21:33:07.272][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-03 21:33:07.276][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-03 21:33:07.277][biodb::testThat]
biodb.INFO [2025-10-03 21:33:07.278][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-10-03 21:33:07.280][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:33:07.281][biodb::testThat]
sched.DEBUG[2025-10-03 21:33:07.284][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-03 21:33:07.287][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:07.294][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-03 21:33:07.295][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-03 21:33:07.299][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 [2025-10-03 21:33:07.303][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:07.308][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-03 21:33:07.309][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:07.312][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:07.313][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 21:33:07.347][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 [2025-10-03 21:33:07.350][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:07.355][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-03 21:33:07.357][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:07.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:07.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:07.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.443][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.446][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 21:33:07.454][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 [2025-10-03 21:33:07.458][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:07.461][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-03 21:33:07.463][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:07.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:07.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.475][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.477][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 21:33:07.481][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 [2025-10-03 21:33:07.485][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:07.488][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-03 21:33:07.489][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:07.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:07.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.501][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.504][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:07.508][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.525][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 21:33:07.532][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 [2025-10-03 21:33:07.535][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:07.538][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-03 21:33:07.539][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:07.541][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:07.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.554][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".
sched.DEBUG[2025-10-03 21:33:07.556][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 [2025-10-03 21:33:07.559][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:07.562][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-03 21:33:07.563][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:07.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:07.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 21:33:07.580][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 [2025-10-03 21:33:07.583][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:07.589][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-10-03 21:33:07.591][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:07.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:07.599][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.616][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.INFO [2025-10-03 21:33:07.637][biodb::testThat]
biodb.INFO [2025-10-03 21:33:07.639][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-10-03 21:33:07.640][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:33:07.642][biodb::testThat]
sched.DEBUG[2025-10-03 21:33:07.647][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 [2025-10-03 21:33:07.652][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:07.657][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-10-03 21:33:07.658][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:07.660][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:07.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.669][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 21:33:07.675][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 [2025-10-03 21:33:07.678][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:07.683][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-10-03 21:33:07.684][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:07.689][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:07.690][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.707][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.INFO [2025-10-03 21:33:07.716][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-03 21:33:07.721][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-03 21:33:07.722][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-03 21:33:07.723][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:07.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:07.729][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:07.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:07.735][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.736][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.INFO [2025-10-03 21:33:07.740][biodb::testContext]
biodb.INFO [2025-10-03 21:33:07.741][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-03 21:33:07.742][biodb::testContext] Test context - Test web services
biodb.INFO [2025-10-03 21:33:07.743][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-03 21:33:07.744][biodb::testContext]
biodb.INFO [2025-10-03 21:33:07.746][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-03 21:33:07.748][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-03 21:33:07.752][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 21:33:07.753][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-03 21:33:07.755][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-03 21:33:07.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.759][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-03 21:33:07.760][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-03 21:33:07.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.764][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-03 21:33:07.765][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-03 21:33:07.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.769][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-03 21:33:07.770][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-03 21:33:07.771][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-03 21:33:07.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.775][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-03 21:33:07.776][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-03 21:33:07.778][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-03 21:33:07.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.782][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-03 21:33:07.783][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-03 21:33:07.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.788][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-03 21:33:07.789][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-03 21:33:07.790][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-03 21:33:07.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.794][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-03 21:33:07.795][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-03 21:33:07.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.799][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-03 21:33:07.801][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-03 21:33:07.806][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-03 21:33:07.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.814][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-03 21:33:07.815][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-03 21:33:07.818][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-03 21:33:07.819][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-03 21:33:07.820][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-03 21:33:07.825][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-03 21:33:07.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.833][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-03 21:33:07.835][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-03 21:33:07.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.847][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-03 21:33:07.848][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-03 21:33:07.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.856][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-03 21:33:07.857][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-03 21:33:07.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.861][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-03 21:33:07.862][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-03 21:33:07.864][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-03 21:33:07.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.872][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-03 21:33:07.877][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-03 21:33:07.883][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-03 21:33:07.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.891][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-03 21:33:07.897][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-03 21:33:07.898][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-03 21:33:07.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:07.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:07.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:07.906][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-03 21:33:07.908][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:07.910][self$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[2025-10-03 21:33:07.911][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:07.912][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:33:07.913][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:07.914][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:33:07.915][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:07.916][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 21:33:07.917][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-03 21:33:07.918][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:33:07.920][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:07.921][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-03 21:33:07.922][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:33:07.923][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:07.924][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:07.925][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 21:33:07.925][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 21:33:07.925][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 21:33:07.925][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-03 21:33:07.925][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-03 21:33:07.926][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 21:33:07.927][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:07.928][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:07.930][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:33:07.931][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:07.932][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:07.933][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:33:07.934][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:07.935][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:33:07.936][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:33:07.937][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:07.938][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:07.939][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-03 21:33:07.945][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:07.949][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-03 21:33:07.951][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:07.952][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:33:07.953][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:07.954][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:33:07.955][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:07.956][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 21:33:07.957][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-03 21:33:07.958][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:33:07.959][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:07.960][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-03 21:33:07.962][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:33:07.963][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:07.964][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:07.965][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 21:33:07.965][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 21:33:07.965][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 21:33:07.965][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-03 21:33:07.965][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-03 21:33:07.966][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 21:33:07.967][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:07.969][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:07.970][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:33:07.971][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:07.972][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:07.973][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:33:07.974][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:07.975][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:33:07.976][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:33:07.977][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:07.978][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:07.980][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-03 21:33:07.982][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:07.983][self$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[2025-10-03 21:33:07.984][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:07.985][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:33:07.987][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:07.988][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:33:07.989][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:07.990][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 21:33:07.991][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-03 21:33:07.992][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:33:07.993][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:07.995][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-03 21:33:07.996][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:33:07.997][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:07.998][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:07.999][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.001][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 21:33:08.002][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:08.003][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:08.008][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:33:08.009][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:08.024][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:08.025][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:33:08.026][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.027][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:33:08.032][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:33:08.035][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:08.036][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.038][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-03 21:33:08.040][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.041][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-03 21:33:08.042][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.043][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:33:08.045][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.046][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:33:08.047][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:08.048][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 21:33:08.049][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-03 21:33:08.050][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:33:08.051][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:08.052][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-03 21:33:08.053][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:33:08.054][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.056][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.057][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.058][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 21:33:08.059][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:08.060][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:08.061][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:33:08.062][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:08.063][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:08.064][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:33:08.065][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.066][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:33:08.067][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:33:08.068][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:08.069][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.071][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 21:33:08.072][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.083][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[2025-10-03 21:33:08.084][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.117][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.DEBUG[2025-10-03 21:33:08.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.127][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[2025-10-03 21:33:08.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.137][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[2025-10-03 21:33:08.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.153][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-03 21:33:08.155][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-03 21:33:08.156][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-03 21:33:08.158][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-03 21:33:08.160][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-03 21:33:08.161][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-03 21:33:08.163][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-03 21:33:08.164][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-03 21:33:08.165][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-03 21:33:08.167][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-03 21:33:08.169][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-03 21:33:08.170][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-03 21:33:08.172][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-03 21:33:08.173][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-03 21:33:08.175][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-03 21:33:08.176][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-03 21:33:08.178][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-03 21:33:08.179][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-03 21:33:08.181][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-03 21:33:08.183][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-03 21:33:08.184][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-03 21:33:08.186][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-03 21:33:08.187][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-03 21:33:08.189][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-03 21:33:08.191][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-03 21:33:08.192][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-03 21:33:08.194][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-03 21:33:08.195][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-03 21:33:08.197][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-03 21:33:08.198][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-03 21:33:08.200][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-03 21:33:08.202][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-03 21:33:08.203][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-03 21:33:08.205][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-03 21:33:08.206][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-03 21:33:08.208][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-03 21:33:08.209][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-03 21:33:08.211][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-03 21:33:08.213][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-03 21:33:08.214][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-03 21:33:08.216][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-03 21:33:08.217][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-03 21:33:08.219][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-03 21:33:08.220][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-03 21:33:08.222][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-03 21:33:08.223][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-03 21:33:08.225][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-03 21:33:08.227][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-03 21:33:08.228][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-03 21:33:08.230][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-03 21:33:08.231][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-03 21:33:08.233][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-03 21:33:08.234][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-03 21:33:08.236][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-03 21:33:08.237][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-03 21:33:08.239][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-03 21:33:08.240][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-03 21:33:08.242][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-03 21:33:08.243][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-03 21:33:08.245][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-03 21:33:08.247][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-03 21:33:08.248][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-03 21:33:08.250][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-03 21:33:08.251][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-03 21:33:08.253][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-03 21:33:08.254][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-03 21:33:08.256][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-03 21:33:08.258][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-03 21:33:08.259][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-03 21:33:08.261][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-03 21:33:08.262][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-03 21:33:08.264][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-03 21:33:08.265][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-03 21:33:08.267][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-03 21:33:08.268][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-03 21:33:08.270][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-03 21:33:08.271][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-03 21:33:08.273][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-03 21:33:08.274][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-03 21:33:08.276][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-03 21:33:08.278][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-03 21:33:08.279][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-03 21:33:08.281][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-03 21:33:08.282][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-03 21:33:08.284][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-03 21:33:08.285][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 21:33:08.286][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.288][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:08.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:08.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:08.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:08.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:08.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:08.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:08.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:08.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:08.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:08.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:08.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:08.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:08.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:08.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:08.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:08.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:08.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:08.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:08.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:08.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:08.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:08.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.374][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[2025-10-03 21:33:08.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:08.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:08.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.381][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[2025-10-03 21:33:08.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:08.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:08.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.388][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[2025-10-03 21:33:08.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:08.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:08.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:08.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:08.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:08.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:08.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.408][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.DEBUG[2025-10-03 21:33:08.410][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-03 21:33:08.412][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-03 21:33:08.414][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:08.415][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-03 21:33:08.416][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.417][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:33:08.418][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.419][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:33:08.420][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.421][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-03 21:33:08.423][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-03 21:33:08.424][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:33:08.425][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.426][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-03 21:33:08.427][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:33:08.428][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-03 21:33:08.428][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-03 21:33:08.428][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-03 21:33:08.428][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-03 21:33:08.428][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-03 21:33:08.428][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-03 21:33:08.428][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-03 21:33:08.428][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-03 21:33:08.428][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-03 21:33:08.428][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-03 21:33:08.428][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-03 21:33:08.429][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:08.431][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 21:33:08.431][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 21:33:08.431][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 21:33:08.432][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-03 21:33:08.433][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:08.434][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:08.435][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:33:08.436][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:08.437][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:08.438][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:33:08.439][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-03 21:33:08.439][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-03 21:33:08.440][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:33:08.441][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:33:08.442][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.443][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-03 21:33:08.443][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-03 21:33:08.445][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-03 21:33:08.447][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-03 21:33:08.448][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-03 21:33:08.450][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-03 21:33:08.452][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-03 21:33:08.453][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-03 21:33:08.457][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-03 21:33:08.460][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-03 21:33:08.462][biodb::testThat]
biodb.INFO [2025-10-03 21:33:08.463][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-10-03 21:33:08.464][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:33:08.465][biodb::testThat]
sched.DEBUG[2025-10-03 21:33:08.468][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-03 21:33:08.470][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:08.477][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-03 21:33:08.478][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-03 21:33:08.482][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-03 21:33:08.485][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:08.491][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-03 21:33:08.492][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-03 21:33:08.505][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-03 21:33:08.507][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-03 21:33:08.508][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-03 21:33:08.509][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:08.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:08.512][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.514][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-03 21:33:08.518][biodb::testContext]
biodb.INFO [2025-10-03 21:33:08.520][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-03 21:33:08.521][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-10-03 21:33:08.522][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-03 21:33:08.523][biodb::testContext]
biodb.INFO [2025-10-03 21:33:08.525][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-03 21:33:08.527][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-03 21:33:08.531][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 21:33:08.532][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-03 21:33:08.534][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-03 21:33:08.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.538][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-03 21:33:08.539][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-03 21:33:08.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.543][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-03 21:33:08.544][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-03 21:33:08.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.548][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-03 21:33:08.549][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-03 21:33:08.551][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-03 21:33:08.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.555][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-03 21:33:08.556][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-03 21:33:08.557][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-03 21:33:08.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.561][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-03 21:33:08.562][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-03 21:33:08.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.566][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-03 21:33:08.567][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-03 21:33:08.568][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-03 21:33:08.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.571][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[2025-10-03 21:33:08.573][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-03 21:33:08.574][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-03 21:33:08.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.582][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-03 21:33:08.583][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-03 21:33:08.584][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-03 21:33:08.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.591][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[2025-10-03 21:33:08.592][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-03 21:33:08.593][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-03 21:33:08.594][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-03 21:33:08.600][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-03 21:33:08.601][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-03 21:33:08.606][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-03 21:33:08.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.610][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-03 21:33:08.611][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-03 21:33:08.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.619][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-03 21:33:08.624][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-03 21:33:08.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.633][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-03 21:33:08.634][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-03 21:33:08.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.637][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[2025-10-03 21:33:08.638][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-03 21:33:08.641][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-03 21:33:08.645][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-03 21:33:08.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.650][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-03 21:33:08.655][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-03 21:33:08.666][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-03 21:33:08.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.673][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[2025-10-03 21:33:08.674][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-03 21:33:08.676][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-03 21:33:08.684][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-03 21:33:08.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.689][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-03 21:33:08.691][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:08.692][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-03 21:33:08.693][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.694][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:33:08.695][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.696][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:33:08.698][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:08.699][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 21:33:08.700][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-03 21:33:08.701][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:33:08.702][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.703][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-03 21:33:08.704][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:33:08.705][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.706][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.707][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 21:33:08.707][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 21:33:08.707][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 21:33:08.707][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-03 21:33:08.707][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-03 21:33:08.708][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 21:33:08.709][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:08.710][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:08.711][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:33:08.713][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:08.713][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:08.715][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:33:08.715][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.717][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:33:08.718][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:33:08.719][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:08.720][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.721][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-03 21:33:08.723][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:08.724][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-03 21:33:08.725][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.726][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:33:08.727][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.728][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:33:08.729][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:08.730][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 21:33:08.731][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-03 21:33:08.732][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:33:08.734][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.735][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-03 21:33:08.736][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:33:08.737][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.738][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.739][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 21:33:08.739][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 21:33:08.739][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 21:33:08.739][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-03 21:33:08.739][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-03 21:33:08.740][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 21:33:08.741][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:08.742][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:08.743][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:33:08.745][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:08.746][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:08.747][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:33:08.748][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.749][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:33:08.750][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:33:08.751][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:08.752][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.754][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-03 21:33:08.762][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.763][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-03 21:33:08.764][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.765][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:33:08.766][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.767][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:33:08.768][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:08.769][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 21:33:08.770][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-03 21:33:08.771][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:33:08.772][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:08.774][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-03 21:33:08.775][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:33:08.776][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.777][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.778][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.779][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 21:33:08.780][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:08.781][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:08.782][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:33:08.783][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:08.784][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:08.785][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:33:08.786][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.787][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:33:08.788][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:33:08.789][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:08.791][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.792][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-03 21:33:08.794][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.795][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-03 21:33:08.796][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.797][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:33:08.798][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.799][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:33:08.800][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:08.801][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 21:33:08.803][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-03 21:33:08.804][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:33:08.805][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:08.806][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-03 21:33:08.807][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:33:08.808][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.809][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:08.810][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.811][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 21:33:08.812][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:08.813][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:08.814][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:33:08.815][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:08.816][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:08.817][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:33:08.819][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.820][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:33:08.821][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:33:08.822][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:08.823][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 21:33:08.824][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 21:33:08.825][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.885][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[2025-10-03 21:33:08.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.900][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.DEBUG[2025-10-03 21:33:08.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:08.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:08.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:08.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:08.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:08.906][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-03 21:33:08.908][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-03 21:33:08.909][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-03 21:33:08.911][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-03 21:33:08.912][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-03 21:33:08.914][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-03 21:33:08.915][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-03 21:33:08.917][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-03 21:33:08.919][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-03 21:33:08.920][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-03 21:33:08.922][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-03 21:33:08.923][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-03 21:33:08.925][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-03 21:33:08.926][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-03 21:33:08.928][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-03 21:33:08.930][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-03 21:33:08.932][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-03 21:33:08.933][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-03 21:33:08.935][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-03 21:33:08.937][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-03 21:33:08.938][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-03 21:33:08.940][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-03 21:33:08.941][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-03 21:33:08.943][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-03 21:33:08.945][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-03 21:33:08.946][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-03 21:33:08.948][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-03 21:33:08.949][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-03 21:33:08.951][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-03 21:33:08.952][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-03 21:33:08.954][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-03 21:33:08.956][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-03 21:33:08.957][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-03 21:33:08.959][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-03 21:33:08.960][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-03 21:33:08.962][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-03 21:33:08.963][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-03 21:33:08.965][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-03 21:33:08.967][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-03 21:33:08.968][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-03 21:33:08.970][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-03 21:33:08.971][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-03 21:33:08.973][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-03 21:33:08.975][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-03 21:33:08.976][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-03 21:33:08.978][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-03 21:33:08.979][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-03 21:33:08.981][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-03 21:33:08.982][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-03 21:33:08.984][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-03 21:33:08.986][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-03 21:33:08.987][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-03 21:33:08.989][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-03 21:33:08.990][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-03 21:33:08.992][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-03 21:33:08.993][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-03 21:33:08.995][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-03 21:33:08.997][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-03 21:33:08.998][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-03 21:33:09.000][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-03 21:33:09.001][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-03 21:33:09.003][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-03 21:33:09.004][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-03 21:33:09.006][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-03 21:33:09.007][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-03 21:33:09.009][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-03 21:33:09.011][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-03 21:33:09.012][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-03 21:33:09.014][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-03 21:33:09.015][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-03 21:33:09.017][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-03 21:33:09.018][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-03 21:33:09.020][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-03 21:33:09.022][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-03 21:33:09.023][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-03 21:33:09.025][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-03 21:33:09.026][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-03 21:33:09.028][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-03 21:33:09.030][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-03 21:33:09.031][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-03 21:33:09.033][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-03 21:33:09.034][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-03 21:33:09.036][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-03 21:33:09.038][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-03 21:33:09.039][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-03 21:33:09.040][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 21:33:09.041][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:09.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:09.043][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:09.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:09.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:09.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:09.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:09.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:09.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:09.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:09.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:09.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:09.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:09.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:09.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:09.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:09.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:09.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:09.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:09.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:09.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:09.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:09.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:09.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:09.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:09.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:09.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:09.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:09.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:09.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:09.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:09.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:09.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:09.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:09.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:09.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:09.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:09.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:09.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:09.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:09.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:09.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:09.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:09.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:09.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:09.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:09.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:09.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:09.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:09.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:09.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:09.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:09.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:09.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:09.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:09.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:09.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:09.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:09.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:09.106][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[2025-10-03 21:33:09.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:09.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:09.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:09.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:09.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:09.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:09.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:09.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:09.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:09.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:09.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:09.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:09.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:09.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:09.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:09.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:09.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:09.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:09.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:09.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:09.127][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[2025-10-03 21:33:09.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:09.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:09.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:09.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:09.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:09.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:09.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:09.135][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:09.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:09.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:09.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:09.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:09.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:09.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:09.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:09.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:09.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:09.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:09.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:09.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:09.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:09.149][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:09.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:09.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:09.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:09.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:09.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:09.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 21:33:09.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 21:33:09.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:09.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:09.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:09.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:09.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:09.162][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[2025-10-03 21:33:09.164][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-03 21:33:09.165][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-03 21:33:09.168][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:09.169][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-03 21:33:09.170][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:09.171][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 21:33:09.172][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:09.173][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 21:33:09.174][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:09.175][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-03 21:33:09.176][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-03 21:33:09.178][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 21:33:09.179][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:09.180][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-03 21:33:09.181][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 21:33:09.182][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-03 21:33:09.182][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-03 21:33:09.182][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-03 21:33:09.182][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-03 21:33:09.182][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-03 21:33:09.182][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-03 21:33:09.182][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-03 21:33:09.182][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-03 21:33:09.182][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-03 21:33:09.182][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-03 21:33:09.182][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-03 21:33:09.183][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-03 21:33:09.184][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 21:33:09.184][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 21:33:09.184][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 21:33:09.186][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-03 21:33:09.187][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:09.188][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:09.189][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 21:33:09.190][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 21:33:09.191][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 21:33:09.192][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 21:33:09.193][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-03 21:33:09.193][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-03 21:33:09.194][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 21:33:09.195][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 21:33:09.196][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-03 21:33:09.197][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-03 21:33:09.197][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-03 21:33:09.199][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-03 21:33:09.201][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-03 21:33:09.202][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-03 21:33:09.204][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-03 21:33:09.206][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-03 21:33:09.207][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-03 21:33:09.211][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-03 21:33:09.214][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-03 21:33:09.216][biodb::testThat]
biodb.INFO [2025-10-03 21:33:09.217][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-10-03 21:33:09.218][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 21:33:09.219][biodb::testThat]
sched.DEBUG[2025-10-03 21:33:09.222][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-03 21:33:09.224][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:09.231][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-03 21:33:09.232][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-03 21:33:09.236][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 [2025-10-03 21:33:09.239][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-03 21:33:09.241][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-03 21:33:09.243][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 21:33:09.247][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-10-03 21:33:09.250][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 21:33:09.251][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 21:33:09.265][FUN] Found encoding UTF-8 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-10-03 21:33:09.267][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 21:33:09.269][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 21:33:09.270][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 21:33:09.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 21:33:09.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:09.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:09.279][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:09.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:09.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:09.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 21:33:09.286][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:09.288][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:09.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.290][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:09.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:09.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.296][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:33:09.297][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:33:09.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.299][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.301][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 21:33:09.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 21:33:09.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.305][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:33:09.306][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:33:09.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.309][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.310][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 21:33:09.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 21:33:09.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.315][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 21:33:09.316][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 21:33:09.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.318][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.320][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 21:33:09.321][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 21:33:09.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.323][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.324][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:09.326][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:09.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.328][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.329][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:09.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 21:33:09.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.334][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:33:09.335][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:09.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.337][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.339][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 21:33:09.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 21:33:09.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.343][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:09.344][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:09.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.346][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:09.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 21:33:09.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.352][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:33:09.354][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:33:09.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.356][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.358][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 21:33:09.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 21:33:09.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.365][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:33:09.366][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:33:09.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.372][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.374][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 21:33:09.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 21:33:09.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.382][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:33:09.383][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:33:09.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.389][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.390][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 21:33:09.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 21:33:09.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:09.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:09.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.405][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:09.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:09.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:09.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:09.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 21:33:09.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 21:33:09.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:09.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:09.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:09.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:09.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:09.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:09.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:09.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:09.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:09.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:09.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 21:33:09.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 21:33:09.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 21:33:09.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 21:33:09.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 21:33:09.514][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-10-03 21:33:09.518][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-03 21:33:09.519][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-03 21:33:09.520][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-03 21:33:09.521][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 21:33:09.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 21:33:09.523][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 21:33:09.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 21:33:09.525][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 21:33:09.526][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
 19.317   0.637  22.479

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.7140.0300.780
ChebiEntry0.1870.0020.204