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This page was generated on 2025-10-31 12:02 -0400 (Fri, 31 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4901
lconwaymacOS 12.7.6 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4691
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4637
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 210/2361HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.16.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-10-30 13:45 -0400 (Thu, 30 Oct 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_22
git_last_commit: 28c1b2d
git_last_commit_date: 2025-10-29 11:12:25 -0400 (Wed, 29 Oct 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.6 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

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: 1.16.0
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_1.16.0.tar.gz
StartedAt: 2025-10-30 21:31:02 -0400 (Thu, 30 Oct 2025)
EndedAt: 2025-10-30 21:32:32 -0400 (Thu, 30 Oct 2025)
EllapsedTime: 90.1 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_1.16.0.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 ‘1.16.0’
* 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 ‘1.16.0’
** 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 [2025-10-30 21:32:06.989][biodb::testContext]
biodb.INFO [2025-10-30 21:32:06.992][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-30 21:32:06.993][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-10-30 21:32:06.994][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-30 21:32:06.994][biodb::testContext]
biodb.INFO [2025-10-30 21:32:07.001][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-10-30 21:32:07.003][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-30 21:32:07.010][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 21:32:07.011][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-30 21:32:07.012][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-30 21:32:07.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.016][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-30 21:32:07.034][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-30 21:32:07.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.038][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-30 21:32:07.039][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-30 21:32:07.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.055][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-30 21:32:07.056][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-30 21:32:07.057][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-30 21:32:07.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.059][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[2025-10-30 21:32:07.060][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-30 21:32:07.061][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-30 21:32:07.062][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-30 21:32:07.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.066][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-30 21:32:07.067][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-30 21:32:07.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.070][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-30 21:32:07.071][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-30 21:32:07.072][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-30 21:32:07.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.075][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-30 21:32:07.076][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-30 21:32:07.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.080][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-30 21:32:07.081][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-30 21:32:07.082][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-30 21:32:07.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.085][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-30 21:32:07.086][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-30 21:32:07.087][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-30 21:32:07.088][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-30 21:32:07.089][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-30 21:32:07.090][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-30 21:32:07.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.093][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-30 21:32:07.094][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-30 21:32:07.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.098][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-30 21:32:07.099][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-30 21:32:07.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.102][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-30 21:32:07.103][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-30 21:32:07.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.107][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-30 21:32:07.108][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-30 21:32:07.109][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-30 21:32:07.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.111][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[2025-10-30 21:32:07.112][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-30 21:32:07.113][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-30 21:32:07.117][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-30 21:32:07.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.120][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-30 21:32:07.121][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-30 21:32:07.122][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-30 21:32:07.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.125][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[2025-10-30 21:32:07.128][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-30 21:32:07.162][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:07.189][self$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[2025-10-30 21:32:07.192][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.193][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:07.194][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.195][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:07.196][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:07.197][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 21:32:07.199][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-30 21:32:07.200][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:07.201][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.202][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-30 21:32:07.203][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:07.204][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:07.205][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.206][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 21:32:07.206][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 21:32:07.206][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 21:32:07.206][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-30 21:32:07.206][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-30 21:32:07.208][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 21:32:07.209][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:07.210][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:07.211][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:07.212][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:07.213][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:07.214][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:07.215][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:07.216][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:07.217][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:07.218][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:07.219][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:07.220][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-30 21:32:07.223][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:07.224][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-30 21:32:07.225][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.226][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:07.227][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.228][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:07.229][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:07.230][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 21:32:07.231][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-30 21:32:07.232][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:07.233][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.235][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-30 21:32:07.236][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:07.237][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:07.238][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.239][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 21:32:07.239][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 21:32:07.239][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 21:32:07.239][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-30 21:32:07.239][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-30 21:32:07.240][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 21:32:07.241][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:07.242][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:07.243][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:07.244][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:07.245][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:07.246][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:07.247][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:07.248][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:07.249][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:07.250][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:07.251][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:07.253][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-30 21:32:07.255][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.256][self$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[2025-10-30 21:32:07.257][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.258][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:07.259][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.260][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:07.261][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:07.262][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 21:32:07.263][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-30 21:32:07.264][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:07.265][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:07.266][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-30 21:32:07.267][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:07.269][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:07.270][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.271][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:07.272][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 21:32:07.273][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:07.274][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:07.275][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:07.276][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:07.277][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:07.278][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:07.279][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:07.280][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:07.281][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:07.282][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:07.283][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:07.284][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-30 21:32:07.286][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.303][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-30 21:32:07.304][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.305][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:07.306][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.307][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:07.308][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:07.309][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 21:32:07.311][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-30 21:32:07.312][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:07.313][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:07.314][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-30 21:32:07.315][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:07.316][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:07.317][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.318][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:07.319][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 21:32:07.320][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:07.321][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:07.322][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:07.323][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:07.324][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:07.325][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:07.326][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:07.327][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:07.328][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:07.329][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:07.330][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:07.335][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 21:32:07.336][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.346][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[2025-10-30 21:32:07.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.371][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[2025-10-30 21:32:07.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.381][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[2025-10-30 21:32:07.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.401][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[2025-10-30 21:32:07.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.406][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[2025-10-30 21:32:07.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.417][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-30 21:32:07.423][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-30 21:32:07.424][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-30 21:32:07.426][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-30 21:32:07.427][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-30 21:32:07.429][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-30 21:32:07.431][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-30 21:32:07.432][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-30 21:32:07.434][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-30 21:32:07.435][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-30 21:32:07.436][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-30 21:32:07.438][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-30 21:32:07.439][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-30 21:32:07.441][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-30 21:32:07.442][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-30 21:32:07.443][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-30 21:32:07.445][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-30 21:32:07.446][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-30 21:32:07.447][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-30 21:32:07.449][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-30 21:32:07.450][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-30 21:32:07.451][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-30 21:32:07.453][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-30 21:32:07.454][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-30 21:32:07.455][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-30 21:32:07.457][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-30 21:32:07.458][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-30 21:32:07.459][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-30 21:32:07.461][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-30 21:32:07.462][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-30 21:32:07.464][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-30 21:32:07.465][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-30 21:32:07.466][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-30 21:32:07.468][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-30 21:32:07.469][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-30 21:32:07.470][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-30 21:32:07.472][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-30 21:32:07.473][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-30 21:32:07.474][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-30 21:32:07.476][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-30 21:32:07.477][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-30 21:32:07.479][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-30 21:32:07.480][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-30 21:32:07.481][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-30 21:32:07.483][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-30 21:32:07.484][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-30 21:32:07.485][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-30 21:32:07.487][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-30 21:32:07.488][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-30 21:32:07.490][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-30 21:32:07.491][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-30 21:32:07.492][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-30 21:32:07.494][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-30 21:32:07.495][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-30 21:32:07.496][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-30 21:32:07.498][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-30 21:32:07.499][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-30 21:32:07.500][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-30 21:32:07.502][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-30 21:32:07.503][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-30 21:32:07.504][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-30 21:32:07.506][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-30 21:32:07.507][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-30 21:32:07.508][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-30 21:32:07.510][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-30 21:32:07.511][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-30 21:32:07.512][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-30 21:32:07.514][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-30 21:32:07.515][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-30 21:32:07.517][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-30 21:32:07.518][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-30 21:32:07.519][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-30 21:32:07.521][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-30 21:32:07.522][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-30 21:32:07.524][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-30 21:32:07.525][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-30 21:32:07.526][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-30 21:32:07.528][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-30 21:32:07.535][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-30 21:32:07.536][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-30 21:32:07.538][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-30 21:32:07.539][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-30 21:32:07.540][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-30 21:32:07.547][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-30 21:32:07.549][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-10-30 21:32:07.552][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 21:32:07.553][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.555][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:07.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:07.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:07.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:07.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:07.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:07.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:07.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:07.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:07.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:07.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:07.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:07.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.597][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.DEBUG[2025-10-30 21:32:07.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:07.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:07.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.603][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[2025-10-30 21:32:07.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:07.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:07.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.609][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[2025-10-30 21:32:07.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:07.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:07.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:07.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:07.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.622][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[2025-10-30 21:32:07.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:07.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:07.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.628][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[2025-10-30 21:32:07.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:07.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:07.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:07.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:07.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:07.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:07.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:07.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:07.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:07.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:07.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:07.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:07.661][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-30 21:32:07.671][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-30 21:32:07.674][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:07.675][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-30 21:32:07.676][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.677][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:07.678][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.679][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:07.680][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.681][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-30 21:32:07.682][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-30 21:32:07.683][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:07.684][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.685][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-30 21:32:07.686][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:07.687][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-30 21:32:07.687][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-30 21:32:07.687][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-30 21:32:07.687][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-30 21:32:07.687][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-30 21:32:07.687][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-30 21:32:07.687][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-30 21:32:07.687][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-30 21:32:07.687][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-30 21:32:07.687][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-30 21:32:07.687][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-30 21:32:07.688][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:07.689][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 21:32:07.689][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 21:32:07.689][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 21:32:07.690][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-30 21:32:07.691][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:07.692][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:07.693][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:07.694][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:07.695][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:07.696][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:07.697][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-30 21:32:07.697][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-30 21:32:07.698][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:07.699][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:07.700][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:07.701][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-30 21:32:07.701][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-30 21:32:07.708][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-30 21:32:07.710][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-30 21:32:07.711][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-30 21:32:07.713][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-30 21:32:07.714][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-30 21:32:07.716][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-30 21:32:07.743][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-30 21:32:07.760][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-30 21:32:07.782][biodb::testThat]
biodb.INFO [2025-10-30 21:32:07.783][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-10-30 21:32:07.784][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:07.785][biodb::testThat]
biodb.TRACE[2025-10-30 21:32:07.789][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-10-30 21:32:07.791][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:07.794][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:07.802][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:07.803][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:07.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:07.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:07.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:07.817][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:07.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:07.827][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:07.829][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:07.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.831][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:07.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:07.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.849][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:07.850][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:07.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.852][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.880][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:07.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:07.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.884][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:07.885][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:07.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.887][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.889][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:07.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:07.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.893][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:07.894][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:07.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.896][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.897][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:07.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:07.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.901][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:07.902][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:07.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.904][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.905][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:07.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:07.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.909][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:07.910][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:07.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.912][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.913][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:07.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:07.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.918][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:07.919][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:07.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.921][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.922][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:07.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:07.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.926][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:07.927][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:07.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.929][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:07.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:07.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.935][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:07.936][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:07.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.938][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.940][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:07.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:07.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.944][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:07.945][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:07.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.947][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.948][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:07.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:07.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.953][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:07.954][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:07.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.956][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.957][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:07.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:07.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:07.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:07.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.966][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:07.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:07.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:07.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:07.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:07.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:07.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:07.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:07.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:07.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:07.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:07.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:07.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:07.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:07.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:08.042][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-10-30 21:32:08.044][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:08.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:08.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:08.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:08.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.074][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.078][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.082][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:08.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:08.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:08.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:08.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.090][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-30 21:32:08.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-30 21:32:08.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.094][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-30 21:32:08.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-30 21:32:08.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.098][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-30 21:32:08.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-30 21:32:08.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.101][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-30 21:32:08.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-30 21:32:08.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.175][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.200][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.201][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.203][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.231][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.232][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.234][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.247][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:08.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:08.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.251][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:08.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:08.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.256][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:08.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:08.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.260][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:08.261][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:08.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.263][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.264][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:08.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:08.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.276][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:08.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:08.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.281][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:08.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:08.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.285][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:08.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:08.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.289][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:08.290][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:08.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.292][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.293][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:08.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:08.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:08.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:08.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.310][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:08.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:08.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:08.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:08.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.319][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:08.320][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:08.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.322][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.323][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:08.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:08.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:08.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:08.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:08.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:08.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:08.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:08.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.348][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:08.349][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:08.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.351][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:08.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:08.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.431][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:08.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:08.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.436][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:08.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:08.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.440][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:08.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:08.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.444][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:08.445][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:08.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.447][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.448][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:08.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:08.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.459][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-30 21:32:08.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:08.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.464][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-30 21:32:08.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:08.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.467][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-30 21:32:08.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:08.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.471][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-30 21:32:08.473][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:08.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.475][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.476][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-30 21:32:08.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:08.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.487][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:08.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:08.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.492][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:08.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:08.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.496][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:08.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:08.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.500][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:08.501][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:08.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.503][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.504][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:08.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:08.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.515][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:08.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:08.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.519][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:08.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:08.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.524][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:08.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:08.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.528][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:08.529][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:08.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.531][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.532][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:08.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:08.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.543][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.547][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.551][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.555][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.556][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.558][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.559][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.571][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:08.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:08.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.575][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:08.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:08.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.580][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:08.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:08.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.584][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:08.585][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:08.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.587][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.588][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:08.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:08.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.601][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.602][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.604][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.609][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:08.610][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:08.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.612][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.623][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:08.624][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:08.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.626][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.631][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:08.632][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:08.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.634][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.639][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.640][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.642][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.647][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:08.648][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:08.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.650][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.655][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:08.657][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:08.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.659][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.664][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:08.665][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:08.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.667][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.672][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-30 21:32:08.673][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:08.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.675][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.680][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:08.681][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:08.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.683][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.688][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:08.689][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:08.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.691][ef$get] fields variable is a list.
biodb.INFO [2025-10-30 21:32:08.700][biodb::testThat]
biodb.INFO [2025-10-30 21:32:08.701][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-10-30 21:32:08.702][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:08.703][biodb::testThat]
biodb.DEBUG[2025-10-30 21:32:08.721][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-10-30 21:32:08.725][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:08.729][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:08.736][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-10-30 21:32:08.738][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:08.764][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:08.766][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:08.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:08.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:08.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:08.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:08.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:08.777][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:08.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:08.781][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.782][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.784][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.808][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:08.810][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:08.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.812][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.813][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:08.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:08.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.818][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:08.826][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:08.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.828][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.830][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:08.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:08.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.834][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:08.835][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:08.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.837][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.838][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:08.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:08.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.843][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.844][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.846][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.847][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:08.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.851][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:08.853][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:08.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.854][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.856][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:08.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:08.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.860][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:08.861][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:08.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.863][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.864][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:08.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:08.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.869][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:08.870][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:08.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.872][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:08.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:08.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.877][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:08.878][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:08.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.880][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.882][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:08.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:08.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.886][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:08.887][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:08.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.889][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.891][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:08.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:08.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.895][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:08.896][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:08.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.898][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.900][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:08.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:08.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:08.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:08.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:08.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:08.947][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-10-30 21:32:08.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-10-30 21:32:08.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-10-30 21:32:08.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-10-30 21:32:08.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-10-30 21:32:08.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:08.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-10-30 21:32:08.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-10-30 21:32:08.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-30 21:32:08.969][biodb::testThat]
biodb.INFO [2025-10-30 21:32:08.970][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-10-30 21:32:08.971][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:08.972][biodb::testThat]
biodb.TRACE[2025-10-30 21:32:08.976][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:08.977][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:08.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:08.979][ef$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:08.980][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-10-30 21:32:09.008][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:09.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:09.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.013][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:09.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:09.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.017][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:09.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:09.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:09.031][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-10-30 21:32:09.037][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-30 21:32:09.059][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:09.066][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-30 21:32:09.067][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-30 21:32:09.090][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 [2025-10-30 21:32:09.124][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:09.128][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-30 21:32:09.129][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:09.131][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-10-30 21:32:09.143][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:09.144][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:09.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.146][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.147][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:09.148][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:09.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.150][ef$get] fields variable is a list.
biodb.INFO [2025-10-30 21:32:09.154][biodb::testThat]
biodb.INFO [2025-10-30 21:32:09.155][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-10-30 21:32:09.156][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:09.157][biodb::testThat]
biodb.TRACE[2025-10-30 21:32:09.182][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:09.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:09.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.187][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:09.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:09.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.191][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:09.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:09.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 21:32:09.261][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 [2025-10-30 21:32:09.264][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:09.268][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-30 21:32:09.269][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-30 21:32:09.286][biodb::testThat]
biodb.INFO [2025-10-30 21:32:09.287][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-10-30 21:32:09.288][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:09.289][biodb::testThat]
biodb.TRACE[2025-10-30 21:32:09.311][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:09.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:09.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:09.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:09.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:09.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:09.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.324][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:09.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:09.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:09.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:09.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:09.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:09.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.336][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-30 21:32:09.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-30 21:32:09.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.340][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-30 21:32:09.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-30 21:32:09.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.344][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-30 21:32:09.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-30 21:32:09.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.348][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-30 21:32:09.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-30 21:32:09.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.372][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:09.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:09.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.376][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:09.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:09.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.381][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:09.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:09.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.385][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:09.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:09.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:09.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:09.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.400][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:09.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:09.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.404][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-30 21:32:09.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-30 21:32:09.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.408][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-30 21:32:09.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-30 21:32:09.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.413][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-30 21:32:09.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-30 21:32:09.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:09.417][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-30 21:32:09.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-30 21:32:09.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:09.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-30 21:32:09.426][biodb::testThat]
biodb.INFO [2025-10-30 21:32:09.428][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-10-30 21:32:09.429][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:09.430][biodb::testThat]
biodb.INFO [2025-10-30 21:32:09.439][biodb::testThat]
biodb.INFO [2025-10-30 21:32:09.440][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-10-30 21:32:09.441][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:09.442][biodb::testThat]
biodb.INFO [2025-10-30 21:32:09.450][biodb::testThat]
biodb.INFO [2025-10-30 21:32:09.453][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-10-30 21:32:09.455][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:09.456][biodb::testThat]
biodb.DEBUG[2025-10-30 21:32:09.463][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-10-30 21:32:10.135][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-10-30 21:32:10.507][biodb::testThat]
biodb.INFO [2025-10-30 21:32:10.508][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-10-30 21:32:10.510][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:10.511][biodb::testThat]
biodb.TRACE[2025-10-30 21:32:10.518][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:10.520][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:10.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.522][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.523][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:10.525][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:10.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.527][ef$get] fields variable is a list.
biodb.INFO [2025-10-30 21:32:10.529][biodb::testThat]
biodb.INFO [2025-10-30 21:32:10.530][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-10-30 21:32:10.532][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:10.533][biodb::testThat]
biodb.TRACE[2025-10-30 21:32:10.546][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:10.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:10.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.550][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:10.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:10.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.554][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:10.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:10.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 21:32:10.674][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 [2025-10-30 21:32:10.677][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:10.681][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-30 21:32:10.682][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-30 21:32:10.772][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 [2025-10-30 21:32:10.775][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:10.779][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-30 21:32:10.780][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-30 21:32:10.794][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-30 21:32:10.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-30 21:32:10.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:10.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:10.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:10.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:10.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:10.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:10.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:10.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:10.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:10.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:10.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 21:32:10.839][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 [2025-10-30 21:32:10.841][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:10.844][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-30 21:32:10.845][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:10.848][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:10.849][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:10.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:10.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:10.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:10.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:10.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:10.859][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-10-30 21:32:10.909][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:10.911][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:10.915][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-10-30 21:32:10.917][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:10.918][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:10.919][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:10.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:10.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:10.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:10.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:10.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:10.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:10.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:10.934][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:10.935][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:10.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.937][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:10.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:10.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.943][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:10.944][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:10.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.946][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.948][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:10.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:10.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.952][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:10.953][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:10.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.955][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.957][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:10.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:10.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.962][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:10.963][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:10.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.965][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.966][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:10.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:10.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.971][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:10.972][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:10.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.974][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.975][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:10.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:10.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.979][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:10.988][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:10.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.990][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.991][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:10.993][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:10.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.995][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:10.996][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:10.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:10.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:10.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.000][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:11.001][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:11.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.003][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:11.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:11.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.009][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:11.010][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:11.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.012][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.014][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:11.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:11.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.019][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:11.020][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:11.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.022][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.024][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:11.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:11.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.028][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:11.030][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:11.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.032][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.033][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:11.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:11.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:11.082][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-10-30 21:32:11.093][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 21:32:11.107][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:11.109][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:11.112][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-30 21:32:11.113][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:11.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:11.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:11.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:11.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:11.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:11.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:11.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:11.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:11.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:11.155][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:11.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:11.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:11.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:11.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:11.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:11.171][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-10-30 21:32:11.172][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:11.173][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:11.177][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-10-30 21:32:11.178][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:11.179][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:11.181][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:11.182][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:11.183][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:11.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:11.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:11.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:11.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:11.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:11.194][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.196][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.198][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.203][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:11.204][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:11.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.206][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.208][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:11.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:11.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.212][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:11.213][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:11.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.215][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.217][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:11.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:11.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.221][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:11.222][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:11.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.224][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.225][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:11.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:11.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.230][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:11.231][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:11.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.233][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:11.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:11.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.238][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:11.239][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:11.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.241][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.243][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:11.244][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.246][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.247][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:11.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.251][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:11.252][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:11.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.254][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.256][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:11.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:11.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.260][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:11.261][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:11.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.263][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.265][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:11.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:11.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.269][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:11.270][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:11.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.272][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.274][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:11.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:11.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.279][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:11.280][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:11.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.282][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.283][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:11.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:11.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:11.331][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-10-30 21:32:11.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 21:32:11.369][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 [2025-10-30 21:32:11.372][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:11.376][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-30 21:32:11.377][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:11.380][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:11.381][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:11.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:11.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:11.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:11.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:11.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:11.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.400][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:11.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:11.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:11.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:11.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:11.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:11.413][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:11.414][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.DEBUG[2025-10-30 21:32:11.415][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-10-30 21:32:11.416][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:11.418][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:11.421][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-10-30 21:32:11.422][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:11.423][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:11.424][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:11.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:11.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:11.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:11.433][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:11.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:11.435][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:11.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:11.439][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.440][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.442][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.448][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:11.449][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:11.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.451][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.453][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:11.454][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:11.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.456][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.458][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:11.459][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:11.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.461][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.462][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:11.463][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:11.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.465][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.466][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:11.467][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:11.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.469][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.470][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:11.472][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.474][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.475][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:11.476][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:11.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.478][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.479][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:11.480][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:11.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.482][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.484][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:11.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:11.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.488][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:11.489][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:11.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.491][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.492][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:11.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:11.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.497][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:11.498][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:11.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.500][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.501][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:11.549][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-10-30 21:32:11.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.554][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.562][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:11.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:11.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:11.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:11.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:11.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:11.580][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:11.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:11.582][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-10-30 21:32:11.583][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:11.585][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:11.589][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-10-30 21:32:11.590][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:11.591][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:11.593][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:11.594][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:11.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:11.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:11.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:11.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:11.603][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:11.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:11.607][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.608][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.610][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.616][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:11.617][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:11.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.619][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.621][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:11.622][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:11.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.624][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.625][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:11.627][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:11.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.629][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.630][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:11.631][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:11.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.633][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.635][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:11.636][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:11.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.638][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.639][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:11.640][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.642][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.644][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:11.645][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:11.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.647][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.648][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:11.649][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:11.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.651][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.653][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:11.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:11.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.657][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:11.659][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:11.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.661][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.662][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:11.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:11.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.667][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:11.668][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:11.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.670][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:11.719][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-10-30 21:32:11.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.732][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:11.741][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:11.742][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:11.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:11.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:11.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:11.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:11.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:11.752][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-10-30 21:32:11.753][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:11.755][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:11.759][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-10-30 21:32:11.760][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:11.762][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:11.763][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:11.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:11.766][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:11.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:11.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:11.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:11.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:11.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:11.777][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.778][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.780][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.786][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:11.787][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:11.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.789][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.790][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:11.791][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:11.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.793][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.795][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:11.796][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:11.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.798][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.799][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:11.801][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:11.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.803][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.804][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:11.805][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:11.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.807][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.808][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:11.809][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.811][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.813][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:11.814][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:11.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.816][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.817][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:11.818][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:11.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.820][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.822][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:11.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:11.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.826][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:11.828][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:11.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.830][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.831][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:11.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:11.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.836][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:11.837][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:11.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.839][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:11.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:11.891][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-10-30 21:32:11.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:11.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:11.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:11.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:11.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:11.921][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:11.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:11.923][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:11.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:11.925][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-10-30 21:32:11.926][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:11.928][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:11.933][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-10-30 21:32:11.935][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:11.936][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:11.937][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:11.939][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:11.940][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:11.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:11.946][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:11.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:11.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:11.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:11.952][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.954][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.956][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:11.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:11.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.962][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:11.963][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:11.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.965][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.966][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:11.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:11.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.971][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:11.972][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:11.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.974][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.976][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:11.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:11.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.981][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:11.982][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:11.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.984][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.985][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:11.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:11.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.989][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:11.991][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:11.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.992][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.994][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:11.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:11.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:11.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:11.998][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:11.999][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:12.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.001][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.003][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:12.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:12.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.007][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:12.008][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.010][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.011][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:12.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.015][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.017][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.019][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.024][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:12.025][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:12.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.027][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.029][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:12.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:12.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.033][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:12.034][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:12.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.036][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.038][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:12.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:12.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.042][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:12.043][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:12.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.045][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.047][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:12.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:12.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:12.099][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-10-30 21:32:12.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.104][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.108][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:12.112][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:12.113][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:12.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:12.119][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:12.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:12.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:12.122][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[2025-10-30 21:32:12.123][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-10-30 21:32:12.124][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:12.126][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:12.131][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-10-30 21:32:12.132][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:12.133][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:12.134][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:12.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:12.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:12.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:12.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:12.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:12.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:12.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:12.149][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.150][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.152][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.158][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:12.159][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:12.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.161][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.162][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:12.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:12.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.167][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:12.168][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:12.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.170][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.172][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:12.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:12.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.176][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:12.177][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:12.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.179][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.180][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:12.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:12.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.185][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.186][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.188][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.189][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.193][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:12.194][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:12.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.196][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.198][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:12.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:12.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.202][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:12.203][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.205][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.206][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:12.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.211][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.212][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.214][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.220][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:12.221][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:12.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.223][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.225][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:12.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:12.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.230][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:12.231][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:12.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.233][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.235][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:12.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:12.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.239][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:12.241][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:12.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.243][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.244][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:12.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:12.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:12.300][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-10-30 21:32:12.301][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.310][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:12.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:12.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:12.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:12.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:12.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:12.324][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:12.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:12.326][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-10-30 21:32:12.327][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:12.329][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:12.333][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-10-30 21:32:12.335][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:12.336][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:12.337][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:12.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:12.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:12.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:12.346][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:12.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:12.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:12.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:12.353][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.354][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.356][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.362][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:12.363][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:12.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.365][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.366][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:12.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:12.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.371][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:12.372][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:12.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.374][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.375][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:12.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:12.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.380][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:12.381][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:12.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.383][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.384][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:12.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:12.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.389][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.390][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.392][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.393][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.397][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:12.398][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:12.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.400][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.402][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:12.403][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.405][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.406][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:12.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.411][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.412][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.414][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.420][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:12.421][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:12.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.423][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.424][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:12.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:12.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.429][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:12.430][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:12.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.439][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.440][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:12.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:12.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.445][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:12.446][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:12.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.448][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.449][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:12.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:12.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:12.497][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-10-30 21:32:12.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:12.511][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:12.512][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:12.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:12.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:12.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:12.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:12.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:12.523][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-10-30 21:32:12.524][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:12.526][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:12.533][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-10-30 21:32:12.534][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:12.535][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:12.537][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:12.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:12.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:12.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:12.546][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:12.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:12.548][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:12.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:12.552][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.553][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.555][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.561][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:12.562][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:12.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.564][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.566][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:12.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:12.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.570][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:12.572][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:12.573][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.574][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.575][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:12.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:12.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.580][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:12.581][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:12.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.583][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.585][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:12.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:12.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.589][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.590][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.592][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.594][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.598][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:12.600][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:12.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.602][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.603][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:12.604][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.607][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.608][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:12.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.613][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.614][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.616][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.630][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:12.631][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:12.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.633][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.635][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:12.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:12.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.639][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:12.640][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:12.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.642][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.644][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:12.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:12.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.648][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:12.649][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:12.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.651][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.653][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:12.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:12.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:12.702][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-10-30 21:32:12.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:12.716][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:12.717][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:12.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:12.724][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:12.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:12.727][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:12.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:12.729][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-10-30 21:32:12.730][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:12.732][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:12.736][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-10-30 21:32:12.737][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:12.739][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:12.740][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:12.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:12.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:12.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:12.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:12.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:12.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:12.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:12.754][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.756][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.758][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.763][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:12.764][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:12.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.766][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.768][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:12.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:12.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.772][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:12.773][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:12.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.776][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.777][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:12.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:12.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.781][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:12.782][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:12.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.784][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.786][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:12.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:12.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.790][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.791][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.793][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.795][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.799][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:12.800][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:12.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.802][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.804][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:12.805][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.814][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.815][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:12.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.819][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.820][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.822][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:12.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.827][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:12.828][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:12.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.830][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.832][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:12.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:12.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.836][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:12.837][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:12.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.839][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.840][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:12.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:12.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.845][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:12.846][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:12.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.848][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.849][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:12.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:12.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:12.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:12.895][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-10-30 21:32:12.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:12.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:12.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:12.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:12.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:12.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:12.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:12.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:12.919][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[2025-10-30 21:32:12.920][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-10-30 21:32:12.921][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:12.923][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:12.927][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-10-30 21:32:12.928][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:12.929][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:12.931][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:12.933][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:12.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:12.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:12.940][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:12.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:12.942][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:12.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:12.946][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.947][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.949][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:12.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:12.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.955][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:12.956][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:12.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.958][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.960][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:12.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:12.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.964][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:12.965][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:12.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.967][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.969][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:12.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:12.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.973][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:12.974][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:12.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.976][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.978][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:12.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:12.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.982][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.983][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.992][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.993][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:12.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:12.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:12.998][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:12.999][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:13.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.001][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.002][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:13.003][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.005][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.007][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:13.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.011][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.012][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.014][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.020][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:13.021][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:13.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.023][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.025][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:13.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:13.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.029][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:13.030][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:13.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.032][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.033][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:13.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:13.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.038][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:13.039][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:13.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.041][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.042][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:13.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:13.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:13.090][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-10-30 21:32:13.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:13.105][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:13.106][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:13.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:13.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:13.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:13.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:13.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:13.118][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-10-30 21:32:13.119][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:13.120][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:13.125][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-10-30 21:32:13.126][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:13.127][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:13.129][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:13.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:13.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:13.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:13.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:13.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:13.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:13.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:13.144][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.146][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.148][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.154][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:13.155][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:13.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.157][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.158][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:13.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:13.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.163][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:13.164][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:13.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.166][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.167][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:13.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:13.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.179][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:13.180][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:13.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.182][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.183][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:13.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:13.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.188][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:13.189][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:13.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.191][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.192][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:13.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:13.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.196][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:13.197][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:13.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.199][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.201][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:13.202][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.204][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.205][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:13.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.210][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.211][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.213][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.219][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:13.220][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:13.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.222][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.224][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:13.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:13.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.228][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:13.229][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:13.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.231][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.233][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:13.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:13.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.237][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:13.238][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:13.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.240][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.242][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:13.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:13.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:13.292][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-10-30 21:32:13.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:13.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:13.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:13.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:13.314][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:13.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:13.316][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:13.317][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[2025-10-30 21:32:13.318][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-10-30 21:32:13.320][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:13.321][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:13.324][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-10-30 21:32:13.325][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:13.327][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:13.328][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:13.331][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:13.332][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:13.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:13.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:13.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:13.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:13.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:13.347][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.348][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.350][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.356][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:13.398][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:13.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.402][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.404][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:13.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:13.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.408][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:13.409][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:13.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.411][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.413][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:13.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:13.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.417][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:13.418][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:13.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.421][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.422][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:13.423][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:13.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.425][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.427][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:13.428][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:13.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.430][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.431][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:13.433][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.435][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.436][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:13.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.441][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.442][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.444][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.450][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:13.451][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:13.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.453][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.455][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:13.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:13.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.460][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:13.461][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:13.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.464][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.465][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:13.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:13.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.469][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:13.471][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:13.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.473][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:13.517][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-10-30 21:32:13.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:13.531][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:13.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:13.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:13.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:13.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:13.541][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:13.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:13.543][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-10-30 21:32:13.544][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:13.546][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:13.549][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-10-30 21:32:13.550][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:13.551][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:13.553][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:13.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:13.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:13.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:13.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:13.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:13.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:13.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:13.567][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.568][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.570][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.576][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:13.577][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:13.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.585][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.586][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:13.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:13.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.591][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:13.592][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:13.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.593][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.595][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:13.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:13.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.598][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:13.599][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:13.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.601][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.602][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:13.603][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:13.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.605][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.606][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:13.607][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:13.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.609][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.610][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:13.611][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.613][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.615][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:13.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.619][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.620][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.621][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.627][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:13.628][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:13.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.630][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.631][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:13.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:13.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.635][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:13.636][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:13.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.638][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.639][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:13.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:13.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.643][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:13.644][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:13.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.646][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:13.686][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-10-30 21:32:13.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:13.699][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:13.700][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:13.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:13.705][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:13.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:13.707][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:13.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:13.709][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-10-30 21:32:13.710][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:13.711][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:13.716][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-10-30 21:32:13.717][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:13.718][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:13.719][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:13.721][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:13.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:13.722][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:13.727][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:13.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:13.729][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:13.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:13.732][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.733][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.735][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.740][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:13.741][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:13.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.743][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.749][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:13.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:13.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.754][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:13.755][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:13.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.757][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.758][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:13.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:13.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.762][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:13.763][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:13.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.765][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.766][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:13.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:13.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.770][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:13.771][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:13.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.773][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.774][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:13.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:13.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.778][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:13.779][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:13.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.781][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.782][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:13.784][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.786][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.787][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:13.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.791][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.792][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.794][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:13.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.799][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:13.800][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:13.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.802][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.804][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:13.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:13.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.808][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:13.809][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:13.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.811][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.812][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:13.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:13.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.816][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:13.817][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:13.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.819][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.820][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:13.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:13.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:13.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:13.863][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-10-30 21:32:13.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.869][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:13.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:13.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:13.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:13.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:13.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:13.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:13.885][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:13.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:13.887][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-10-30 21:32:13.888][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:13.890][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:13.896][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-10-30 21:32:13.898][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:13.900][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:13.902][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:13.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:13.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:13.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:13.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:13.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:13.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:13.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:13.922][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.924][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.937][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:13.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:13.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.945][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:13.946][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:13.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.949][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.951][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:13.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:13.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.956][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:13.958][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:13.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.960][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.962][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:13.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:13.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.968][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:13.969][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:13.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.972][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:13.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:13.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.979][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:13.980][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:13.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.983][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.985][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:13.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:13.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.991][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:13.992][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:13.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:13.995][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:13.997][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:13.998][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.001][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.002][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:14.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.006][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.007][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.009][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.014][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:14.015][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:14.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.017][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.018][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:14.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:14.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.022][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:14.023][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:14.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.025][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.026][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:14.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:14.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.030][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:14.031][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:14.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.033][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.034][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:14.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:14.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:14.076][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-10-30 21:32:14.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:14.089][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:14.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:14.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:14.095][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:14.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:14.097][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:14.098][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[2025-10-30 21:32:14.099][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-10-30 21:32:14.100][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:14.102][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:14.106][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-10-30 21:32:14.107][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:14.108][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:14.109][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:14.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:14.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:14.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:14.122][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:14.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:14.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:14.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:14.126][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.127][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.129][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.134][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:14.135][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:14.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.137][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.138][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:14.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:14.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.142][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:14.143][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:14.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.145][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.146][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:14.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:14.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.150][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:14.151][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:14.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.153][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.154][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:14.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:14.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.158][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.160][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.161][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.163][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.167][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:14.168][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:14.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.169][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.171][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:14.172][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.174][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.175][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:14.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.179][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.180][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.182][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.187][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:14.188][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:14.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.190][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.191][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:14.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:14.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.195][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:14.196][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:14.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.198][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.199][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:14.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:14.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.203][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:14.204][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:14.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.206][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.207][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:14.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:14.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:14.251][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-10-30 21:32:14.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.260][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:14.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:14.265][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:14.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:14.270][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:14.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:14.272][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:14.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:14.280][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-10-30 21:32:14.281][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:14.283][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:14.287][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-10-30 21:32:14.288][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:14.289][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:14.290][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:14.291][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:14.292][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:14.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:14.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:14.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:14.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:14.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:14.303][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.304][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.305][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.311][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:14.312][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:14.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.314][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.315][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:14.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:14.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.319][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:14.320][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:14.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.322][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.323][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:14.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:14.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.327][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:14.328][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:14.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.330][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.331][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:14.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:14.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.335][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.336][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.338][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.339][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.343][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:14.344][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:14.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.346][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.347][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:14.348][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.350][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.352][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:14.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.355][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.356][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.358][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.363][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:14.364][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:14.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.366][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.367][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:14.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:14.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.371][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:14.372][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:14.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.374][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.375][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:14.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:14.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.379][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:14.380][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:14.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.382][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.383][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:14.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:14.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:14.425][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-10-30 21:32:14.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.430][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:14.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:14.444][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:14.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:14.449][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:14.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:14.451][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:14.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:14.453][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-10-30 21:32:14.454][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:14.455][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:14.459][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-10-30 21:32:14.460][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:14.461][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:14.462][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:14.464][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:14.465][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:14.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:14.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:14.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:14.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:14.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:14.475][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.476][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.478][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.483][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:14.484][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:14.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.486][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.487][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:14.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:14.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.491][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:14.492][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:14.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.494][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.495][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:14.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:14.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.499][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:14.500][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:14.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.502][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.503][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:14.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:14.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.507][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.508][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.510][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.511][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.515][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:14.516][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:14.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.518][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.519][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:14.520][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.522][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.523][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:14.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.527][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.528][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.530][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.535][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:14.536][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:14.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.538][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.539][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:14.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:14.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.543][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:14.544][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:14.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.546][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.547][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:14.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:14.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.551][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:14.552][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:14.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.554][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.555][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:14.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:14.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:14.603][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-10-30 21:32:14.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:14.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:14.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:14.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:14.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:14.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:14.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:14.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:14.624][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-10-30 21:32:14.625][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:14.627][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:14.630][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-10-30 21:32:14.631][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:14.632][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:14.633][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:14.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:14.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:14.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:14.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:14.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:14.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:14.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:14.646][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.647][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.649][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.654][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:14.655][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:14.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.657][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.658][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:14.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:14.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.662][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:14.663][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:14.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.665][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.666][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:14.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:14.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.670][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:14.671][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:14.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.673][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.675][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:14.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:14.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.679][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.680][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.682][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.683][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.687][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:14.688][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:14.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.690][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.691][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:14.692][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.694][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.695][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:14.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.699][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.700][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.702][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.708][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:14.709][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:14.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.711][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.712][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:14.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:14.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.716][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:14.718][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:14.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.719][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.721][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:14.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:14.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.725][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:14.726][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:14.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.728][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.729][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:14.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:14.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:14.781][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-10-30 21:32:14.782][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.786][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:14.794][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:14.795][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:14.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:14.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:14.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:14.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:14.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:14.805][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-10-30 21:32:14.806][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:14.808][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:14.811][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-10-30 21:32:14.813][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:14.814][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:14.815][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:14.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:14.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:14.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:14.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:14.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:14.826][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:14.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:14.829][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.830][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.832][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.838][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:14.839][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:14.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.841][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.842][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:14.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:14.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.846][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:14.847][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:14.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.849][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.851][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:14.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:14.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.855][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:14.856][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:14.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.858][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.859][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:14.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:14.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.864][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.865][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.867][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.868][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:14.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.872][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:14.873][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:14.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.875][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.877][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:14.878][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.880][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.881][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:14.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.885][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.887][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.888][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:14.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.894][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:14.895][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:14.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.897][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.898][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:14.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:14.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.903][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:14.904][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:14.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.906][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.907][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:14.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:14.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.911][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:14.912][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:14.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.914][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.916][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:14.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:14.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:14.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:14.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:14.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:14.967][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-10-30 21:32:14.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.972][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:14.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:14.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:14.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 21:32:14.997][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:14.999][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:15.003][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-30 21:32:15.004][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:15.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.035][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.037][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.050][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.059][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.093][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.128][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.129][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.131][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.139][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.143][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.150][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.160][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.186][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.194][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.196][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.200][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.217][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.242][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.246][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.250][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.251][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.277][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.286][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.294][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.298][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.299][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.304][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.333][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.341][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.358][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.363][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.370][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.390][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.401][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.413][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.420][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.446][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.454][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.454][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.467][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.472][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.494][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.506][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 21:32:15.534][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:15.537][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:15.539][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-10-30 21:32:15.540][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-30 21:32:15.543][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:15.546][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:15.548][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-10-30 21:32:15.549][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:15.552][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.553][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.560][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:15.562][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-10-30 21:32:15.563][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:15.564][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:15.569][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-10-30 21:32:15.570][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:15.571][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:15.572][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:15.574][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.585][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.590][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:15.591][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:15.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.593][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:15.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:15.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.598][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:15.599][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:15.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.601][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.603][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:15.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:15.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.607][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:15.608][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:15.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.610][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.611][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:15.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:15.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.615][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:15.616][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:15.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.618][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.619][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:15.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:15.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.623][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:15.624][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:15.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.626][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.627][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:15.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:15.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.632][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:15.633][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:15.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.635][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.636][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:15.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:15.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.640][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:15.641][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.643][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.644][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:15.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.649][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.650][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.651][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.657][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:15.658][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:15.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.660][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.661][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:15.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:15.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.665][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:15.666][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:15.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.668][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.669][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:15.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:15.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.673][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:15.674][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:15.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.676][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.677][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:15.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:15.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:15.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:15.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:15.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:15.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:15.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:15.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:15.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:15.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:15.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:15.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:15.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:15.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:15.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:15.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:15.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:15.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:15.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:15.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:15.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:15.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.719][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-10-30 21:32:15.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.729][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.768][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[2025-10-30 21:32:15.769][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-10-30 21:32:15.770][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:15.771][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:15.775][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-10-30 21:32:15.776][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:15.777][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:15.778][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:15.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.791][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:15.792][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:15.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.794][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:15.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:15.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.799][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:15.800][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:15.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.801][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.803][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:15.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:15.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.807][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:15.808][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:15.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.809][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.811][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:15.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:15.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.815][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:15.816][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:15.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.818][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.819][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:15.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:15.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.823][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:15.824][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:15.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.826][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.828][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:15.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:15.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.832][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:15.833][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:15.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.834][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.836][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:15.837][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.839][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.840][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:15.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:15.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.844][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.845][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.847][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.852][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:15.853][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:15.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.855][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.856][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:15.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:15.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.860][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:15.861][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:15.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.863][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.865][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:15.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:15.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.869][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:15.870][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:15.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.871][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.873][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:15.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:15.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:15.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:15.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:15.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:15.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:15.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:15.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:15.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:15.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:15.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:15.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:15.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:15.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:15.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:15.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:15.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:15.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:15.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:15.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:15.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:15.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.920][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-10-30 21:32:15.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.925][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 21:32:15.949][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:15.951][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:15.955][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-30 21:32:15.956][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:15.959][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.960][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:15.980][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:15.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:15.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:15.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:15.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:15.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:15.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:15.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:15.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:15.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:15.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.044][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.073][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.080][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.094][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.111][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.144][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.166][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.180][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.186][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.202][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.225][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.250][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.251][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.258][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.279][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.280][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.294][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.295][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.300][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.304][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.321][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.323][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.358][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.380][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.390][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.392][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.402][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.407][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 21:32:16.448][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:16.451][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:16.454][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-30 21:32:16.456][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:16.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.480][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.481][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.488][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.494][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.501][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.581][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.583][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.594][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.600][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.602][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.629][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.657][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.658][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.659][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.685][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.689][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.722][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.726][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.727][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.736][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.748][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.753][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.755][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.774][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.786][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.796][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.800][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.817][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.828][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.862][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.883][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:16.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.918][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:16.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.938][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-30 21:32:16.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-30 21:32:16.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-30 21:32:16.948][biodb::testThat]
biodb.INFO [2025-10-30 21:32:16.949][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-10-30 21:32:16.950][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:16.951][biodb::testThat]
biodb.TRACE[2025-10-30 21:32:16.954][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-30 21:32:16.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-30 21:32:16.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:16.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:16.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:16.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:16.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:16.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:16.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:16.970][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:16.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:16.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:16.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:16.977][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:16.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:16.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:16.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:16.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-30 21:32:16.988][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:16.991][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:16.993][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-30 21:32:16.994][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:16.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:16.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:16.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.002][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.004][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:17.006][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 21:32:17.025][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:17.027][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:17.030][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-30 21:32:17.030][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:17.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:17.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:17.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.039][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.041][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:17.043][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:17.055][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:17.056][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:17.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:17.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.070][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:17.078][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-30 21:32:17.079][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:17.080][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:17.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:17.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.098][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.099][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 21:32:17.100][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 21:32:17.101][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 21:32:17.102][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.103][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.104][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.106][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.107][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.108][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.110][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.111][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.112][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.113][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.114][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.116][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.117][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 21:32:17.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.122][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.139][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-30 21:32:17.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:17.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:17.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:17.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.160][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.161][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 21:32:17.162][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 21:32:17.163][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 21:32:17.164][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.165][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.166][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.168][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.169][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.170][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.172][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.180][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.182][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.183][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.184][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.187][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.188][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 21:32:17.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.201][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-30 21:32:17.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:17.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:17.204][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:17.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.220][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.221][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 21:32:17.221][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 21:32:17.222][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 21:32:17.223][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.224][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.225][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.227][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.228][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.229][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.231][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.232][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.233][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.234][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.235][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.237][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.238][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 21:32:17.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.251][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-30 21:32:17.252][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-30 21:32:17.252][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-30 21:32:17.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:17.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:17.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:17.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-30 21:32:17.350][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:17.353][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:17.355][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-30 21:32:17.356][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-30 21:32:17.359][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:17.361][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:17.364][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-30 21:32:17.365][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:17.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:17.368][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:17.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.375][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:17.377][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.385][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:17.389][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:17.390][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:17.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:17.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.407][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:17.411][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:17.412][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:17.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:17.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:17.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:17.458][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-30 21:32:17.487][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:17.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:17.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.495][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:17.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.501][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.505][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.506][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 21:32:17.507][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 21:32:17.508][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 21:32:17.509][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.510][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.511][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.513][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.514][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.515][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.517][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.518][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.519][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.520][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.521][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.522][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.523][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 21:32:17.524][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.536][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-30 21:32:17.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:17.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:17.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.544][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:17.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.589][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.590][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 21:32:17.591][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 21:32:17.592][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 21:32:17.593][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.594][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.595][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.597][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.598][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.599][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.601][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.602][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.613][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.614][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.615][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.617][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.618][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 21:32:17.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.630][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.640][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-30 21:32:17.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:17.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:17.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:17.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.659][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.660][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 21:32:17.661][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 21:32:17.662][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 21:32:17.662][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.664][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.665][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.666][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.667][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.669][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.670][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.672][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.673][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.673][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.675][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.676][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.677][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 21:32:17.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.691][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-30 21:32:17.692][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-30 21:32:17.693][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-30 21:32:17.702][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-30 21:32:17.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-30 21:32:17.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-30 21:32:17.709][biodb::testThat]
biodb.INFO [2025-10-30 21:32:17.710][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-10-30 21:32:17.711][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:17.712][biodb::testThat]
biodb.TRACE[2025-10-30 21:32:17.715][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-30 21:32:17.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-30 21:32:17.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.727][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:17.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:17.738][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:17.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-30 21:32:17.749][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:17.752][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:17.754][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-30 21:32:17.755][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:17.758][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:17.759][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:17.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:17.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 21:32:17.782][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:17.784][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:17.786][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-30 21:32:17.787][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:17.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:17.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:17.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:17.807][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:17.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:17.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:17.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.827][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:17.829][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:17.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:17.841][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-30 21:32:17.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:17.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:17.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.851][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:17.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.861][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.862][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 21:32:17.863][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 21:32:17.864][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 21:32:17.865][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.866][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.867][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.869][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.870][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.871][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.873][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.874][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.875][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.876][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.877][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.879][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.880][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 21:32:17.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.893][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-30 21:32:17.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:17.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:17.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.902][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:17.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.912][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.913][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 21:32:17.914][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 21:32:17.915][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 21:32:17.916][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.917][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.918][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.920][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.921][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.922][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.923][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.924][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.925][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.926][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.927][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.929][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.930][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 21:32:17.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.943][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-30 21:32:17.944][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:17.945][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:17.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:17.951][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:17.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:17.952][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:17.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:17.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.967][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.968][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 21:32:17.969][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 21:32:17.970][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 21:32:17.971][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.972][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.973][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.975][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.976][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.977][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.978][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.979][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.980][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:17.981][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.982][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.984][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.985][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 21:32:17.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:17.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:17.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:17.998][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-30 21:32:17.999][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-30 21:32:18.000][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-30 21:32:18.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:18.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-30 21:32:18.038][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:18.041][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:18.042][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-30 21:32:18.043][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-30 21:32:18.046][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:18.049][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:18.051][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-30 21:32:18.052][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:18.055][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.056][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:18.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:18.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.084][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:18.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:18.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:18.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.121][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:18.126][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-30 21:32:18.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:18.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.145][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.146][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 21:32:18.147][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 21:32:18.148][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 21:32:18.149][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.150][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.151][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.153][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.154][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.155][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.156][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.157][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.158][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.159][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.160][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.162][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.163][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 21:32:18.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.172][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.177][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-30 21:32:18.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.186][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:18.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.196][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.197][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 21:32:18.198][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 21:32:18.198][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 21:32:18.199][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.200][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.201][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.203][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.204][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.205][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.207][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.208][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.209][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.210][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.211][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.213][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.214][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 21:32:18.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.227][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-30 21:32:18.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:18.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.246][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.247][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 21:32:18.248][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 21:32:18.249][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 21:32:18.249][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.250][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.252][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.253][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.254][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.255][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.257][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.258][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.259][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.260][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.261][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.263][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.264][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 21:32:18.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.284][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-30 21:32:18.285][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-30 21:32:18.286][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-30 21:32:18.296][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-30 21:32:18.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-30 21:32:18.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-30 21:32:18.303][biodb::testThat]
biodb.INFO [2025-10-30 21:32:18.304][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-10-30 21:32:18.305][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:18.306][biodb::testThat]
biodb.TRACE[2025-10-30 21:32:18.309][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-30 21:32:18.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-30 21:32:18.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.313][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.317][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:18.333][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.334][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-30 21:32:18.345][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:18.347][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:18.349][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-30 21:32:18.350][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:18.353][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.353][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:18.363][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.371][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 21:32:18.376][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:18.379][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:18.381][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-30 21:32:18.382][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:18.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:18.395][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.399][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:18.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.407][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:18.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:18.429][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-30 21:32:18.430][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.444][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:18.447][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.455][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.456][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 21:32:18.457][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 21:32:18.458][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 21:32:18.459][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.460][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.461][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.463][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.464][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.465][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.467][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.468][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.469][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.470][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.471][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.473][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.474][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 21:32:18.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.487][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-30 21:32:18.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.495][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.497][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.498][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[2025-10-30 21:32:18.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.507][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.508][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 21:32:18.509][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 21:32:18.510][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 21:32:18.511][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.512][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.513][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.515][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.516][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.517][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.519][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.520][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.521][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.521][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.522][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.524][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.525][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 21:32:18.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.538][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-30 21:32:18.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.546][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.548][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:18.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.558][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.559][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 21:32:18.559][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 21:32:18.560][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 21:32:18.561][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.562][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.563][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.565][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.566][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.567][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.569][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.570][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.571][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.572][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.573][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.575][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.576][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 21:32:18.577][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.581][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.585][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.589][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-30 21:32:18.590][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-30 21:32:18.591][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-30 21:32:18.616][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:18.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-30 21:32:18.647][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:18.650][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:18.652][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-30 21:32:18.653][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-30 21:32:18.656][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:18.658][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:18.661][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-30 21:32:18.662][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:18.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:18.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.681][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:18.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:18.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.703][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:18.707][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:18.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:18.729][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-30 21:32:18.731][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:18.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.749][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.750][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 21:32:18.751][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 21:32:18.752][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 21:32:18.753][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.754][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.755][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.757][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.758][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.765][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.768][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.769][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.770][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.771][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.773][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.774][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.775][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 21:32:18.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.789][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-30 21:32:18.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.796][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:18.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.808][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.809][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 21:32:18.810][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 21:32:18.811][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 21:32:18.812][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.813][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.814][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.816][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.817][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.818][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.820][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.821][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.822][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.823][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.824][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.826][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.827][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 21:32:18.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.840][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-30 21:32:18.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.848][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:18.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.861][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.862][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 21:32:18.863][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 21:32:18.864][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 21:32:18.864][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.866][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.867][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.869][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.870][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.871][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.873][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.874][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.875][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 21:32:18.876][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.877][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.879][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.879][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 21:32:18.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:18.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.893][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-30 21:32:18.894][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-30 21:32:18.895][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-30 21:32:18.914][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-30 21:32:18.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-30 21:32:18.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-30 21:32:18.922][biodb::testThat]
biodb.INFO [2025-10-30 21:32:18.923][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-10-30 21:32:18.931][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:18.932][biodb::testThat]
biodb.DEBUG[2025-10-30 21:32:18.934][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-10-30 21:32:18.936][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:18.937][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:18.940][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-10-30 21:32:18.941][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:18.942][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:18.943][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:18.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:18.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:18.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:18.951][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:18.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:18.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:18.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:18.956][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:18.957][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:18.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.959][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:18.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:18.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.965][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:18.966][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:18.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.968][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.970][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:18.971][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:18.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.973][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.974][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:18.976][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:18.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.978][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.979][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:18.980][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:18.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.982][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.983][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:18.985][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:18.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.987][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.988][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:18.989][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:18.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.991][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.993][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.994][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:18.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:18.996][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:18.997][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:18.998][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:18.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.000][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.002][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:19.003][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:19.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.005][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.007][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:19.008][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:19.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.010][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:19.055][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-10-30 21:32:19.057][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-10-30 21:32:19.066][biodb::testThat]
biodb.INFO [2025-10-30 21:32:19.068][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-10-30 21:32:19.069][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:19.070][biodb::testThat]
biodb.DEBUG[2025-10-30 21:32:19.079][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-10-30 21:32:19.081][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-10-30 21:32:19.082][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-10-30 21:32:19.083][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:19.086][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-10-30 21:32:19.089][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-10-30 21:32:19.094][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-10-30 21:32:19.095][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:19.096][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-10-30 21:32:19.097][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:19.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:19.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:19.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:19.107][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:19.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:19.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:19.121][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.123][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.125][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.130][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:19.131][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:19.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.133][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.134][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:19.135][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:19.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.137][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.139][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:19.140][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:19.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.142][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.143][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:19.144][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:19.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.146][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.147][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:19.149][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:19.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.150][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.152][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:19.153][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:19.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.155][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.156][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:19.157][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:19.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.159][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.161][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:19.162][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:19.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.164][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.165][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:19.166][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:19.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.168][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.170][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:19.171][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:19.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.173][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:19.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:19.205][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:19.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:19.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:19.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:19.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:19.216][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.218][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.219][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.225][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:19.226][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:19.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.228][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.229][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:19.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:19.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.233][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:19.234][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:19.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.236][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.238][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:19.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:19.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.242][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:19.243][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:19.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.245][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.247][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:19.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:19.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.251][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:19.252][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:19.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.254][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.255][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:19.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:19.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.259][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:19.261][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:19.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.262][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.264][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:19.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:19.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.268][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:19.269][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:19.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.271][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.272][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:19.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:19.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.277][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:19.278][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:19.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.287][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:19.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:19.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.294][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:19.295][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:19.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.296][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.298][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:19.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:19.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.302][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:19.303][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:19.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.305][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.306][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:19.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:19.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.311][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:19.312][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:19.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.314][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.315][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:19.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:19.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:19.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:19.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:19.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:19.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:19.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:19.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 21:32:19.360][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.361][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.363][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.368][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:19.369][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:19.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.371][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.373][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:19.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:19.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.377][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:19.378][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:19.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.380][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.381][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:19.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:19.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.385][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:19.386][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:19.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.388][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.390][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:19.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:19.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.394][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:19.395][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:19.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.397][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.398][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:19.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:19.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.402][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:19.403][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:19.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.405][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.407][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:19.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:19.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.413][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:19.414][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:19.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.417][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.419][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:19.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:19.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.425][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:19.427][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:19.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.430][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.431][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:19.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:19.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.438][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:19.439][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:19.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.442][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.444][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:19.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:19.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.450][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:19.452][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:19.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.455][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.457][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:19.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:19.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.472][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:19.474][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:19.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.477][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.479][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:19.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:19.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:19.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:19.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:19.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:19.565][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-10-30 21:32:19.566][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-10-30 21:32:19.567][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-10-30 21:32:19.580][biodb::testThat]
biodb.INFO [2025-10-30 21:32:19.581][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-10-30 21:32:19.582][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:19.583][biodb::testThat]
biodb.INFO [2025-10-30 21:32:19.607][biodb::testThat]
biodb.INFO [2025-10-30 21:32:19.608][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-10-30 21:32:19.609][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:19.610][biodb::testThat]
biodb.INFO [2025-10-30 21:32:19.618][biodb::testThat]
biodb.INFO [2025-10-30 21:32:19.619][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-10-30 21:32:19.620][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:19.621][biodb::testThat]
sched.DEBUG[2025-10-30 21:32:19.623][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:19.626][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:19.632][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-10-30 21:32:19.634][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-30 21:32:19.645][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:19.646][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:19.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.648][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:19.649][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:19.650][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:19.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:19.658][ef$get] fields variable is a list.
biodb.INFO [2025-10-30 21:32:19.660][biodb::testThat]
biodb.INFO [2025-10-30 21:32:19.661][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-10-30 21:32:19.662][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:19.663][biodb::testThat]
biodb.ERROR[2025-10-30 21:32:19.677][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-10-30 21:32:19.695][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-10-30 21:32:19.710][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-30 21:32:19.712][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-30 21:32:19.713][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-30 21:32:19.714][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:19.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:19.716][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:19.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:19.718][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-30 21:32:19.731][biodb::testContext]
biodb.INFO [2025-10-30 21:32:19.732][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-30 21:32:19.734][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-10-30 21:32:19.735][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-30 21:32:19.736][biodb::testContext]
biodb.INFO [2025-10-30 21:32:19.738][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-10-30 21:32:19.741][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-30 21:32:19.746][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 21:32:19.747][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-30 21:32:19.748][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-30 21:32:19.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:19.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:19.753][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-30 21:32:19.754][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-30 21:32:19.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:19.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:19.758][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-30 21:32:19.759][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-30 21:32:19.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:19.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:19.763][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-30 21:32:19.765][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-30 21:32:19.766][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-30 21:32:19.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:19.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:19.770][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-30 21:32:19.771][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-30 21:32:19.772][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-30 21:32:19.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:19.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:19.776][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-30 21:32:19.777][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-30 21:32:19.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:19.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:19.781][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-30 21:32:19.782][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-30 21:32:19.783][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-30 21:32:19.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:19.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.786][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[2025-10-30 21:32:19.787][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-30 21:32:19.789][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-30 21:32:19.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:19.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:19.793][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-30 21:32:19.794][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-30 21:32:19.795][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-30 21:32:19.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:19.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.798][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[2025-10-30 21:32:19.799][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-30 21:32:19.800][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-30 21:32:19.802][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-30 21:32:19.803][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-30 21:32:19.804][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-30 21:32:19.805][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-30 21:32:19.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:19.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:19.809][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-30 21:32:19.810][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-30 21:32:19.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:19.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.813][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[2025-10-30 21:32:19.814][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-30 21:32:19.815][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-30 21:32:19.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:19.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:19.820][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-30 21:32:19.821][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-30 21:32:19.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:19.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:19.825][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-30 21:32:19.826][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-30 21:32:19.827][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-30 21:32:19.829][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:19.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:19.841][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-30 21:32:19.843][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-30 21:32:19.847][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-30 21:32:19.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:19.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.851][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[2025-10-30 21:32:19.852][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-30 21:32:19.853][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-30 21:32:19.854][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-30 21:32:19.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:19.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:19.859][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-30 21:32:19.861][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:19.862][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-30 21:32:19.864][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:19.865][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:19.866][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:19.867][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:19.868][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:19.869][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 21:32:19.870][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-30 21:32:19.871][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:19.872][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:19.874][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-30 21:32:19.875][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:19.876][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:19.877][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:19.878][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 21:32:19.878][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 21:32:19.878][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 21:32:19.878][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-30 21:32:19.878][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-30 21:32:19.880][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 21:32:19.881][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:19.882][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:19.883][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:19.885][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:19.886][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:19.887][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:19.889][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:19.890][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:19.891][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:19.892][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:19.894][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:19.896][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-30 21:32:19.898][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:19.900][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-30 21:32:19.901][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:19.902][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:19.903][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:19.904][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:19.906][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:19.907][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 21:32:19.908][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-30 21:32:19.909][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:19.910][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:19.911][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-30 21:32:19.913][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:19.914][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:19.915][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:19.916][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 21:32:19.916][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 21:32:19.916][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 21:32:19.916][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-30 21:32:19.916][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-30 21:32:19.917][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 21:32:19.918][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:19.919][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:19.920][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:19.921][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:19.922][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:19.923][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:19.924][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:19.925][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:19.926][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:19.927][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:19.928][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:19.930][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-30 21:32:19.932][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:19.933][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-30 21:32:19.934][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:19.935][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:19.936][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:19.937][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:19.938][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:19.939][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 21:32:19.940][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-30 21:32:19.941][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:19.943][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:19.944][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-30 21:32:19.945][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:19.946][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:19.947][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:19.948][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:19.949][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 21:32:19.950][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:19.951][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:19.952][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:19.953][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:19.954][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:19.955][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:19.957][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:19.958][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:19.959][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:19.960][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:19.961][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:19.962][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-30 21:32:19.964][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:19.965][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-30 21:32:19.966][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:19.967][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:19.968][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:19.969][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:19.970][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:19.971][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 21:32:19.973][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-30 21:32:19.974][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:19.975][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:19.976][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-30 21:32:19.977][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:19.978][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:19.979][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:19.980][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:19.981][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 21:32:19.982][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:19.983][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:19.984][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:19.985][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:19.986][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:19.987][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:19.988][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:19.988][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:19.989][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:19.990][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:19.991][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:19.993][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 21:32:19.994][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:19.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:19.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:19.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:19.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:19.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.026][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[2025-10-30 21:32:20.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.044][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[2025-10-30 21:32:20.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.058][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.DEBUG[2025-10-30 21:32:20.059][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.072][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[2025-10-30 21:32:20.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.078][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-30 21:32:20.079][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-30 21:32:20.081][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-30 21:32:20.082][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-30 21:32:20.084][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-30 21:32:20.086][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-30 21:32:20.087][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-30 21:32:20.089][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-30 21:32:20.090][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-30 21:32:20.092][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-30 21:32:20.094][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-30 21:32:20.095][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-30 21:32:20.097][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-30 21:32:20.098][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-30 21:32:20.100][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-30 21:32:20.101][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-30 21:32:20.103][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-30 21:32:20.104][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-30 21:32:20.106][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-30 21:32:20.107][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-30 21:32:20.109][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-30 21:32:20.110][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-30 21:32:20.112][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-30 21:32:20.113][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-30 21:32:20.115][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-30 21:32:20.117][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-30 21:32:20.118][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-30 21:32:20.120][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-30 21:32:20.121][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-30 21:32:20.123][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-30 21:32:20.125][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-30 21:32:20.126][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-30 21:32:20.128][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-30 21:32:20.129][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-30 21:32:20.131][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-30 21:32:20.132][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-30 21:32:20.134][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-30 21:32:20.135][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-30 21:32:20.137][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-30 21:32:20.138][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-30 21:32:20.140][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-30 21:32:20.141][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-30 21:32:20.143][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-30 21:32:20.144][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-30 21:32:20.146][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-30 21:32:20.147][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-30 21:32:20.149][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-30 21:32:20.150][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-30 21:32:20.152][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-30 21:32:20.153][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-30 21:32:20.155][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-30 21:32:20.156][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-30 21:32:20.158][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-30 21:32:20.159][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-30 21:32:20.161][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-30 21:32:20.162][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-30 21:32:20.164][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-30 21:32:20.165][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-30 21:32:20.167][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-30 21:32:20.168][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-30 21:32:20.170][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-30 21:32:20.171][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-30 21:32:20.172][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-30 21:32:20.181][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-30 21:32:20.183][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-30 21:32:20.185][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-30 21:32:20.186][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-30 21:32:20.188][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-30 21:32:20.189][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-30 21:32:20.191][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-30 21:32:20.192][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-30 21:32:20.193][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-30 21:32:20.195][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-30 21:32:20.196][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-30 21:32:20.198][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-30 21:32:20.199][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-30 21:32:20.201][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-30 21:32:20.202][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-30 21:32:20.204][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-30 21:32:20.205][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-30 21:32:20.207][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-30 21:32:20.208][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-30 21:32:20.210][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-30 21:32:20.212][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-30 21:32:20.213][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-10-30 21:32:20.215][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 21:32:20.216][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.218][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.298][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.DEBUG[2025-10-30 21:32:20.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.312][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[2025-10-30 21:32:20.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.325][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[2025-10-30 21:32:20.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.333][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-30 21:32:20.335][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-30 21:32:20.337][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:20.338][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-30 21:32:20.339][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:20.340][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:20.341][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:20.574][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:20.575][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:20.576][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-30 21:32:20.577][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-30 21:32:20.578][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:20.579][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:20.580][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-30 21:32:20.581][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:20.582][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-30 21:32:20.582][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-30 21:32:20.582][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-30 21:32:20.582][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-30 21:32:20.582][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-30 21:32:20.582][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-30 21:32:20.582][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-30 21:32:20.582][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-30 21:32:20.582][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-30 21:32:20.582][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-30 21:32:20.582][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-30 21:32:20.583][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:20.584][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 21:32:20.584][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 21:32:20.584][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 21:32:20.585][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-30 21:32:20.586][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:20.587][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:20.588][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:20.589][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:20.590][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:20.591][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:20.592][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-30 21:32:20.592][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-30 21:32:20.593][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:20.594][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:20.595][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:20.596][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-30 21:32:20.596][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-30 21:32:20.598][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-30 21:32:20.599][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-30 21:32:20.601][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-30 21:32:20.602][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-30 21:32:20.604][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-30 21:32:20.605][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-30 21:32:20.609][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-30 21:32:20.612][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-30 21:32:20.614][biodb::testThat]
biodb.INFO [2025-10-30 21:32:20.615][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-10-30 21:32:20.616][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:20.617][biodb::testThat]
sched.DEBUG[2025-10-30 21:32:20.620][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-30 21:32:20.622][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:20.628][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-30 21:32:20.629][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-30 21:32:20.633][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 [2025-10-30 21:32:20.635][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:20.638][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-30 21:32:20.639][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:20.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:20.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.650][FUN] Functions in observer 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[2025-10-30 21:32:20.651][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 [2025-10-30 21:32:20.654][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:20.656][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-30 21:32:20.657][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:20.660][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:20.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.666][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.668][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:20.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-30 21:32:20.699][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 [2025-10-30 21:32:20.701][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:20.703][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-30 21:32:20.704][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:20.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:20.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-30 21:32:20.715][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 [2025-10-30 21:32:20.718][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:20.720][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-30 21:32:20.721][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:20.722][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:20.723][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:20.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-30 21:32:20.745][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 [2025-10-30 21:32:20.748][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:20.750][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-30 21:32:20.751][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:20.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:20.753][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.762][FUN] Functions in observer 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[2025-10-30 21:32:20.763][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 [2025-10-30 21:32:20.766][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:20.768][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-30 21:32:20.769][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:20.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:20.771][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.777][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.779][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.780][FUN] Functions in observer 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[2025-10-30 21:32:20.781][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 [2025-10-30 21:32:20.784][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:20.786][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-10-30 21:32:20.787][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:20.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:20.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.798][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.INFO [2025-10-30 21:32:20.805][biodb::testThat]
biodb.INFO [2025-10-30 21:32:20.806][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-10-30 21:32:20.807][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:20.808][biodb::testThat]
sched.DEBUG[2025-10-30 21:32:20.811][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 [2025-10-30 21:32:20.814][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:20.816][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-10-30 21:32:20.818][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:20.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:20.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-30 21:32:20.834][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 [2025-10-30 21:32:20.837][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:20.843][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-10-30 21:32:20.844][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:20.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:20.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-30 21:32:20.858][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-30 21:32:20.860][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-30 21:32:20.860][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-30 21:32:20.861][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:20.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:20.863][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:20.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:20.865][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.865][FUN] Functions in observer BiodbConfig: [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 [2025-10-30 21:32:20.869][biodb::testContext]
biodb.INFO [2025-10-30 21:32:20.870][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-30 21:32:20.871][biodb::testContext] Test context - Test web services
biodb.INFO [2025-10-30 21:32:20.872][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-30 21:32:20.872][biodb::testContext]
biodb.INFO [2025-10-30 21:32:20.874][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-10-30 21:32:20.876][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-30 21:32:20.880][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 21:32:20.881][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-30 21:32:20.882][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-30 21:32:20.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.885][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-30 21:32:20.886][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-30 21:32:20.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.890][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-30 21:32:20.891][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-30 21:32:20.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.894][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-30 21:32:20.895][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-30 21:32:20.896][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-30 21:32:20.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.900][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-30 21:32:20.901][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-30 21:32:20.902][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-30 21:32:20.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.905][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-30 21:32:20.906][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-30 21:32:20.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.908][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[2025-10-30 21:32:20.909][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-30 21:32:20.910][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-30 21:32:20.911][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-30 21:32:20.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.915][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-30 21:32:20.916][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-30 21:32:20.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.919][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-30 21:32:20.920][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-30 21:32:20.921][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-30 21:32:20.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.924][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-30 21:32:20.925][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-30 21:32:20.926][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-30 21:32:20.927][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-30 21:32:20.928][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-30 21:32:20.929][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-30 21:32:20.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.932][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[2025-10-30 21:32:20.933][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-30 21:32:20.934][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-30 21:32:20.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.937][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-30 21:32:20.938][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-30 21:32:20.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.942][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-30 21:32:20.943][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-30 21:32:20.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.946][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-30 21:32:20.947][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-30 21:32:20.948][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-30 21:32:20.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.951][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-30 21:32:20.952][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-30 21:32:20.955][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-30 21:32:20.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.959][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-30 21:32:20.960][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-30 21:32:20.961][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-30 21:32:20.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:20.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:20.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:20.964][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-30 21:32:20.966][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:20.967][self$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[2025-10-30 21:32:20.968][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:20.969][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:20.970][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:20.971][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:20.972][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:20.973][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 21:32:20.974][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-30 21:32:20.975][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:20.976][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:20.977][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-30 21:32:20.978][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:20.979][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:20.980][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:20.981][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 21:32:20.981][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 21:32:20.981][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 21:32:20.981][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-30 21:32:20.981][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-30 21:32:20.982][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 21:32:20.983][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:20.984][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:20.985][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:20.986][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:20.986][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:20.987][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:20.988][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:20.989][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:20.990][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:20.991][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:20.992][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:20.993][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-30 21:32:20.995][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:20.996][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-30 21:32:20.997][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:20.998][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:20.999][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.000][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.001][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.002][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.003][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-30 21:32:21.004][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:21.005][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.006][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-30 21:32:21.007][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:21.008][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.009][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.010][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 21:32:21.010][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 21:32:21.010][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 21:32:21.010][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-30 21:32:21.010][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-30 21:32:21.011][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 21:32:21.012][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:21.012][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:21.013][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:21.014][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:21.015][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:21.016][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.017][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.018][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:21.019][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:21.020][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.021][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.022][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-30 21:32:21.024][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.025][self$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[2025-10-30 21:32:21.026][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.027][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:21.028][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.029][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.030][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.031][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.033][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-30 21:32:21.034][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:21.035][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.036][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-30 21:32:21.037][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:21.038][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.039][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.040][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.041][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 21:32:21.042][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:21.043][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:21.044][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:21.045][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:21.046][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:21.047][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.048][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.049][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:21.050][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:21.051][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.052][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.053][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-30 21:32:21.055][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.056][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-30 21:32:21.057][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.058][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:21.059][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.060][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.061][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.062][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.063][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-30 21:32:21.064][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:21.065][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.066][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-30 21:32:21.067][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:21.068][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.069][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.070][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.071][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 21:32:21.072][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:21.073][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:21.074][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:21.075][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:21.076][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:21.077][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.078][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.079][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:21.080][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:21.081][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.082][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.084][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 21:32:21.085][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.086][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[2025-10-30 21:32:21.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.106][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[2025-10-30 21:32:21.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.111][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[2025-10-30 21:32:21.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.132][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[2025-10-30 21:32:21.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.137][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[2025-10-30 21:32:21.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.147][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[2025-10-30 21:32:21.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.155][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[2025-10-30 21:32:21.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.160][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.DEBUG[2025-10-30 21:32:21.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.164][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.DEBUG[2025-10-30 21:32:21.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.169][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-30 21:32:21.171][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-30 21:32:21.172][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-30 21:32:21.174][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-30 21:32:21.175][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-30 21:32:21.176][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-30 21:32:21.178][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-30 21:32:21.179][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-30 21:32:21.181][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-30 21:32:21.182][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-30 21:32:21.183][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-30 21:32:21.185][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-30 21:32:21.186][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-30 21:32:21.187][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-30 21:32:21.189][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-30 21:32:21.190][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-30 21:32:21.191][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-30 21:32:21.193][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-30 21:32:21.194][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-30 21:32:21.195][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-30 21:32:21.197][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-30 21:32:21.198][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-30 21:32:21.200][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-30 21:32:21.201][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-30 21:32:21.202][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-30 21:32:21.204][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-30 21:32:21.205][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-30 21:32:21.206][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-30 21:32:21.208][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-30 21:32:21.209][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-30 21:32:21.210][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-30 21:32:21.212][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-30 21:32:21.213][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-30 21:32:21.214][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-30 21:32:21.216][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-30 21:32:21.217][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-30 21:32:21.218][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-30 21:32:21.220][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-30 21:32:21.221][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-30 21:32:21.222][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-30 21:32:21.224][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-30 21:32:21.225][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-30 21:32:21.226][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-30 21:32:21.227][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-30 21:32:21.229][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-30 21:32:21.230][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-30 21:32:21.231][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-30 21:32:21.233][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-30 21:32:21.234][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-30 21:32:21.235][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-30 21:32:21.237][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-30 21:32:21.238][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-30 21:32:21.239][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-30 21:32:21.241][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-30 21:32:21.242][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-30 21:32:21.243][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-30 21:32:21.245][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-30 21:32:21.246][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-30 21:32:21.247][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-30 21:32:21.249][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-30 21:32:21.250][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-30 21:32:21.251][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-30 21:32:21.253][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-30 21:32:21.254][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-30 21:32:21.255][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-30 21:32:21.257][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-30 21:32:21.258][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-30 21:32:21.259][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-30 21:32:21.261][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-30 21:32:21.262][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-30 21:32:21.263][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-30 21:32:21.265][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-30 21:32:21.266][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-30 21:32:21.267][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-30 21:32:21.269][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-30 21:32:21.270][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-30 21:32:21.271][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-30 21:32:21.273][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-30 21:32:21.274][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-30 21:32:21.276][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-30 21:32:21.277][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-30 21:32:21.278][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-30 21:32:21.280][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-30 21:32:21.281][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-30 21:32:21.283][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-10-30 21:32:21.284][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 21:32:21.284][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.286][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:21.290][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:21.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:21.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:21.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:21.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:21.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:21.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:21.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.325][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:21.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:21.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.332][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[2025-10-30 21:32:21.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:21.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:21.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:21.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:21.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:21.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:21.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:21.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:21.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.365][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[2025-10-30 21:32:21.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:21.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:21.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.372][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[2025-10-30 21:32:21.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:21.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:21.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.379][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[2025-10-30 21:32:21.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:21.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:21.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:21.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:21.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:21.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:21.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.400][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[2025-10-30 21:32:21.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:21.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:21.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:21.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:21.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.414][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.DEBUG[2025-10-30 21:32:21.416][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-30 21:32:21.418][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-30 21:32:21.421][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.422][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.423][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.424][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:21.425][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.426][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.427][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.428][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-30 21:32:21.430][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-30 21:32:21.431][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:21.432][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.433][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-30 21:32:21.434][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:21.435][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-30 21:32:21.435][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-30 21:32:21.435][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-30 21:32:21.435][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-30 21:32:21.435][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-30 21:32:21.435][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-30 21:32:21.435][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-30 21:32:21.435][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-30 21:32:21.435][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-30 21:32:21.435][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-30 21:32:21.435][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-30 21:32:21.436][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.438][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 21:32:21.438][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 21:32:21.438][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 21:32:21.439][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-30 21:32:21.440][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:21.441][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:21.442][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:21.443][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:21.444][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:21.445][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.446][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-30 21:32:21.446][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-30 21:32:21.448][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:21.449][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:21.450][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.451][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-30 21:32:21.451][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-30 21:32:21.453][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-30 21:32:21.455][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-30 21:32:21.477][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-30 21:32:21.479][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-30 21:32:21.481][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-30 21:32:21.483][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-30 21:32:21.487][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-30 21:32:21.492][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-30 21:32:21.493][biodb::testThat]
biodb.INFO [2025-10-30 21:32:21.495][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-10-30 21:32:21.496][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:21.497][biodb::testThat]
sched.DEBUG[2025-10-30 21:32:21.500][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-30 21:32:21.503][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:21.509][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-30 21:32:21.511][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-30 21:32:21.515][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-30 21:32:21.518][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:21.520][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-30 21:32:21.521][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-30 21:32:21.530][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-30 21:32:21.532][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-30 21:32:21.533][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-30 21:32:21.534][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:21.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:21.536][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.538][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-30 21:32:21.543][biodb::testContext]
biodb.INFO [2025-10-30 21:32:21.544][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-30 21:32:21.545][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-10-30 21:32:21.546][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-30 21:32:21.547][biodb::testContext]
biodb.INFO [2025-10-30 21:32:21.549][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-10-30 21:32:21.551][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-30 21:32:21.556][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 21:32:21.557][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-30 21:32:21.558][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-30 21:32:21.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.562][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-30 21:32:21.563][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-30 21:32:21.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.567][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-30 21:32:21.569][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-30 21:32:21.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.573][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-30 21:32:21.574][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-30 21:32:21.575][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-30 21:32:21.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.579][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-30 21:32:21.580][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-30 21:32:21.582][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-30 21:32:21.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.586][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-30 21:32:21.587][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-30 21:32:21.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.591][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-30 21:32:21.592][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-30 21:32:21.593][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-30 21:32:21.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.597][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-30 21:32:21.598][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-30 21:32:21.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.602][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-30 21:32:21.603][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-30 21:32:21.604][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-30 21:32:21.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.607][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[2025-10-30 21:32:21.608][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-30 21:32:21.609][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-30 21:32:21.610][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-30 21:32:21.611][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-30 21:32:21.612][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-30 21:32:21.613][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-30 21:32:21.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.617][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-30 21:32:21.618][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-30 21:32:21.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.622][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-30 21:32:21.623][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-30 21:32:21.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.627][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-30 21:32:21.628][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-30 21:32:21.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.632][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-30 21:32:21.633][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-30 21:32:21.634][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-30 21:32:21.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.639][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-30 21:32:21.640][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-30 21:32:21.645][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-30 21:32:21.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.649][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-30 21:32:21.650][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-30 21:32:21.651][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-30 21:32:21.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.656][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-30 21:32:21.658][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.659][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-30 21:32:21.660][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.661][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:21.663][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.664][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.665][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.666][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.667][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-30 21:32:21.668][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:21.670][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.671][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-30 21:32:21.672][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:21.673][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.674][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.675][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 21:32:21.675][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 21:32:21.675][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 21:32:21.675][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-30 21:32:21.675][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-30 21:32:21.677][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 21:32:21.678][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:21.679][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:21.680][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:21.681][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:21.682][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:21.683][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.684][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.685][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:21.686][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:21.687][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.688][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.689][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-30 21:32:21.691][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.692][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-30 21:32:21.693][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.694][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:21.695][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.696][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.697][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.698][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.699][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-30 21:32:21.700][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:21.701][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.702][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-30 21:32:21.703][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:21.704][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.705][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.707][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 21:32:21.707][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 21:32:21.707][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 21:32:21.707][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-30 21:32:21.707][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-30 21:32:21.708][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 21:32:21.710][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:21.711][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:21.712][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:21.712][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:21.713][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:21.714][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.716][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.717][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:21.717][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:21.718][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.720][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.721][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-30 21:32:21.724][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.725][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-30 21:32:21.727][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.728][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:21.729][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.731][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.732][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.733][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.734][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-30 21:32:21.735][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:21.736][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.737][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-30 21:32:21.738][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:21.739][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.740][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.741][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.742][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 21:32:21.743][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:21.744][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:21.745][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:21.746][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:21.747][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:21.748][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.749][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.750][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:21.750][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:21.751][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.752][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.753][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-30 21:32:21.755][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.756][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-30 21:32:21.757][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.758][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:21.759][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.760][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.761][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.762][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.763][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-30 21:32:21.764][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:21.765][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.766][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-30 21:32:21.767][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:21.768][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.769][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:21.770][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.771][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 21:32:21.772][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:21.773][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:21.774][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:21.775][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:21.776][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:21.777][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:21.778][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.778][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:21.779][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:21.780][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:21.781][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 21:32:21.783][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 21:32:21.783][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.784][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.DEBUG[2025-10-30 21:32:21.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.793][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[2025-10-30 21:32:21.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.798][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[2025-10-30 21:32:21.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.826][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[2025-10-30 21:32:21.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.831][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[2025-10-30 21:32:21.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.835][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.DEBUG[2025-10-30 21:32:21.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.859][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.DEBUG[2025-10-30 21:32:21.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:21.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:21.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:21.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:21.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:21.869][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-30 21:32:21.870][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-30 21:32:21.872][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-30 21:32:21.874][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-30 21:32:21.876][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-30 21:32:21.879][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-30 21:32:21.881][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-30 21:32:21.882][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-30 21:32:21.883][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-30 21:32:21.885][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-30 21:32:21.886][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-30 21:32:21.888][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-30 21:32:21.890][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-30 21:32:21.892][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-30 21:32:21.894][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-30 21:32:21.896][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-30 21:32:21.898][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-30 21:32:21.900][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-30 21:32:21.902][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-30 21:32:21.904][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-30 21:32:21.906][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-30 21:32:21.908][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-30 21:32:21.909][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-30 21:32:21.911][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-30 21:32:21.913][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-30 21:32:21.915][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-30 21:32:21.917][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-30 21:32:21.918][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-30 21:32:21.920][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-30 21:32:21.922][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-30 21:32:21.924][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-30 21:32:21.926][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-30 21:32:21.928][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-30 21:32:21.930][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-30 21:32:21.931][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-30 21:32:21.933][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-30 21:32:21.935][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-30 21:32:21.937][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-30 21:32:21.939][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-30 21:32:21.941][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-30 21:32:21.943][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-30 21:32:21.945][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-30 21:32:21.947][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-30 21:32:21.948][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-30 21:32:21.950][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-30 21:32:21.952][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-30 21:32:21.954][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-30 21:32:21.956][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-30 21:32:21.958][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-30 21:32:21.959][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-30 21:32:21.961][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-30 21:32:21.963][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-30 21:32:21.965][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-30 21:32:21.966][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-30 21:32:21.968][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-30 21:32:21.970][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-30 21:32:21.972][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-30 21:32:21.974][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-30 21:32:21.975][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-30 21:32:21.977][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-30 21:32:21.979][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-30 21:32:21.981][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-30 21:32:21.982][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-30 21:32:21.984][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-30 21:32:21.986][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-30 21:32:21.988][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-30 21:32:21.990][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-30 21:32:21.991][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-30 21:32:21.993][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-30 21:32:21.995][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-30 21:32:21.997][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-30 21:32:21.999][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-30 21:32:22.000][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-30 21:32:22.002][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-30 21:32:22.004][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-30 21:32:22.005][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-30 21:32:22.006][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-30 21:32:22.008][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-30 21:32:22.009][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-30 21:32:22.010][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-30 21:32:22.012][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-30 21:32:22.013][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-30 21:32:22.014][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-30 21:32:22.016][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-30 21:32:22.017][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-10-30 21:32:22.018][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 21:32:22.019][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:22.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:22.021][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:22.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:22.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:22.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:22.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:22.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:22.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:22.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:22.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:22.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:22.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:22.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:22.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:22.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:22.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:22.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:22.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:22.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:22.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:22.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:22.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:22.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:22.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:22.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:22.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:22.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:22.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:22.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:22.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:22.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:22.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:22.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:22.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:22.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:22.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:22.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:22.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:22.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:22.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:22.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:22.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:22.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:22.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:22.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:22.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:22.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:22.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:22.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:22.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:22.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:22.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:22.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:22.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:22.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:22.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:22.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:22.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:22.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:22.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:22.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:22.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:22.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:22.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:22.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:22.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:22.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:22.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:22.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:22.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:22.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:22.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:22.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:22.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:22.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:22.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:22.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:22.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:22.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:22.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:22.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:22.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:22.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:22.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:22.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:22.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:22.093][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[2025-10-30 21:32:22.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:22.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:22.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:22.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:22.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:22.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:22.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:22.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:22.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:22.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:22.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:22.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:22.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:22.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 21:32:22.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:22.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:22.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:22.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:22.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:22.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:22.111][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[2025-10-30 21:32:22.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 21:32:22.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:22.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:22.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:22.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:22.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:22.117][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[2025-10-30 21:32:22.118][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-30 21:32:22.120][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-30 21:32:22.122][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:22.123][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-30 21:32:22.124][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:22.125][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 21:32:22.126][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:22.127][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 21:32:22.128][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:22.134][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-30 21:32:22.135][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-30 21:32:22.136][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 21:32:22.137][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:22.138][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-30 21:32:22.139][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 21:32:22.140][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-30 21:32:22.140][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-30 21:32:22.140][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-30 21:32:22.140][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-30 21:32:22.140][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-30 21:32:22.140][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-30 21:32:22.140][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-30 21:32:22.140][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-30 21:32:22.140][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-30 21:32:22.140][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-30 21:32:22.140][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-30 21:32:22.141][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-30 21:32:22.142][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 21:32:22.142][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 21:32:22.142][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 21:32:22.143][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-30 21:32:22.144][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:22.145][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:22.146][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 21:32:22.147][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 21:32:22.147][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 21:32:22.148][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 21:32:22.149][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-30 21:32:22.149][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-30 21:32:22.150][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 21:32:22.151][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 21:32:22.152][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-30 21:32:22.153][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-30 21:32:22.153][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-30 21:32:22.154][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-30 21:32:22.156][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-30 21:32:22.157][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-30 21:32:22.159][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-30 21:32:22.160][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-30 21:32:22.162][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-30 21:32:22.165][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-30 21:32:22.168][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-30 21:32:22.169][biodb::testThat]
biodb.INFO [2025-10-30 21:32:22.170][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-10-30 21:32:22.171][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 21:32:22.172][biodb::testThat]
sched.DEBUG[2025-10-30 21:32:22.174][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-30 21:32:22.176][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:22.182][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-30 21:32:22.183][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-30 21:32:22.187][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 [2025-10-30 21:32:22.189][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-30 21:32:22.191][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-30 21:32:22.192][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 21:32:22.196][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-10-30 21:32:22.198][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 21:32:22.200][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 21:32:22.208][FUN] Found encoding UTF-8 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-10-30 21:32:22.210][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 21:32:22.212][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 21:32:22.213][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 21:32:22.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 21:32:22.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:22.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:22.221][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:22.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:22.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:22.223][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[2025-10-30 21:32:22.227][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:22.228][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:22.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.230][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:22.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:22.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.235][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:22.236][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:22.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.238][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.239][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 21:32:22.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 21:32:22.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.243][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:22.244][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:22.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.246][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.247][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 21:32:22.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 21:32:22.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.251][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 21:32:22.252][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 21:32:22.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.254][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.255][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 21:32:22.256][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 21:32:22.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.258][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.260][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:22.261][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:22.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.262][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.264][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:22.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 21:32:22.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.268][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:22.269][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:22.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.271][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.272][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 21:32:22.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 21:32:22.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.276][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:22.277][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:22.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.279][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.280][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:22.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 21:32:22.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.284][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:22.285][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:22.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.288][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.290][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 21:32:22.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 21:32:22.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.294][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:22.295][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:22.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.297][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.298][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 21:32:22.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 21:32:22.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.302][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:22.304][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:22.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.305][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.307][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 21:32:22.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 21:32:22.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:22.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:22.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:22.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:22.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:22.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:22.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 21:32:22.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 21:32:22.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:22.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:22.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:22.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:22.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:22.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:22.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:22.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:22.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:22.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:22.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 21:32:22.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 21:32:22.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 21:32:22.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 21:32:22.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 21:32:22.351][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-10-30 21:32:22.354][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-30 21:32:22.355][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-30 21:32:22.356][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-30 21:32:22.357][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 21:32:22.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 21:32:22.359][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 21:32:22.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 21:32:22.361][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 21:32:22.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
 15.904   0.456  17.248

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.5600.0600.626
ChebiEntry0.1480.0050.153