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This page was generated on 2025-11-17 11:57 -0500 (Mon, 17 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4903
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4668
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: 2025-11-16 13:45 -0500 (Sun, 16 Nov 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 -0500 (Wed, 29 Oct 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

CHECK results for biodbChebi on nebbiolo2

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

raw results


Summary

Package: biodbChebi
Version: 1.16.0
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: 2025-11-16 21:41:08 -0500 (Sun, 16 Nov 2025)
EndedAt: 2025-11-16 21:42:41 -0500 (Sun, 16 Nov 2025)
EllapsedTime: 93.2 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings biodbChebi_1.16.0.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 [2025-11-16 21:41:56.921][biodb::testContext]
biodb.INFO [2025-11-16 21:41:56.958][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-16 21:41:56.966][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-11-16 21:41:56.973][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-16 21:41:56.981][biodb::testContext]
biodb.INFO [2025-11-16 21:41:57.010][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-11-16 21:41:57.016][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-11-16 21:41:57.032][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 21:41:57.036][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-16 21:41:57.039][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-16 21:41:57.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:57.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:57.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:57.052][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-16 21:41:57.100][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-16 21:41:57.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:57.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:57.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:57.112][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-16 21:41:57.115][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-16 21:41:57.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:57.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:57.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:57.127][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-16 21:41:57.130][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-16 21:41:57.134][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-16 21:41:57.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:57.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:57.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:57.146][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-16 21:41:57.149][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-16 21:41:57.152][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-16 21:41:57.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:57.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:57.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:57.160][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-16 21:41:57.162][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-16 21:41:57.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:57.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:57.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:57.169][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-16 21:41:57.171][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-16 21:41:57.172][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-16 21:41:57.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:57.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:57.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:57.179][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-16 21:41:57.181][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-16 21:41:57.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:57.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:57.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:57.187][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-16 21:41:57.189][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-16 21:41:57.191][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-16 21:41:57.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:57.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:57.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:57.198][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-16 21:41:57.199][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-16 21:41:57.201][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-16 21:41:57.203][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-16 21:41:57.205][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-16 21:41:57.206][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-16 21:41:57.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:57.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:57.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:57.212][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-16 21:41:57.214][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-16 21:41:57.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:57.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:57.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:57.220][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-16 21:41:57.222][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-16 21:41:57.224][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:57.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:57.226][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[2025-11-16 21:41:57.228][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-16 21:41:57.230][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-16 21:41:57.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:57.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:57.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:57.236][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-16 21:41:57.238][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-16 21:41:57.240][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-16 21:41:57.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:57.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:57.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:57.246][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-16 21:41:57.248][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-16 21:41:57.261][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-16 21:41:57.269][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:57.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:57.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:57.292][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-16 21:41:57.300][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-16 21:41:57.308][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-16 21:41:57.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:57.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:57.325][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[2025-11-16 21:41:57.342][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-16 21:41:57.457][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:41:57.554][self$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[2025-11-16 21:41:57.562][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:57.570][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:41:57.581][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:57.594][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:41:57.598][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 21:41:57.607][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 21:41:57.619][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-16 21:41:57.626][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:41:57.638][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:57.645][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-16 21:41:57.657][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:41:57.664][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 21:41:57.676][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:57.685][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 21:41:57.685][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 21:41:57.685][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 21:41:57.685][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-16 21:41:57.685][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-16 21:41:57.694][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 21:41:57.704][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:41:57.707][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:41:57.718][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:41:57.725][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:41:57.732][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:41:57.739][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:41:57.748][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 21:41:57.760][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:41:57.766][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:41:57.774][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 21:41:57.786][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 21:41:57.795][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-16 21:41:57.808][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:41:57.816][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-16 21:41:57.870][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:57.873][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:41:57.878][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:57.881][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:41:57.884][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 21:41:57.888][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 21:41:57.891][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-16 21:41:57.894][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:41:57.898][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:57.901][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-16 21:41:57.905][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:41:57.908][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 21:41:57.911][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:57.914][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 21:41:57.914][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 21:41:57.914][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 21:41:57.914][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-16 21:41:57.914][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-16 21:41:57.917][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 21:41:57.921][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:41:57.923][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:41:57.927][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:41:57.930][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:41:57.933][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:41:57.937][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:41:57.941][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 21:41:57.945][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:41:57.948][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:41:57.951][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 21:41:57.954][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 21:41:57.959][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-16 21:41:57.964][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:57.967][self$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[2025-11-16 21:41:57.972][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:57.975][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:41:57.978][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:57.980][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:41:57.983][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 21:41:57.985][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 21:41:57.987][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-16 21:41:57.989][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:41:57.991][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:41:57.993][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-16 21:41:57.995][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:41:57.997][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 21:41:57.999][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:58.002][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-16 21:41:58.004][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 21:41:58.007][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:41:58.010][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:41:58.012][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:41:58.015][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:41:58.017][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:41:58.021][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:41:58.024][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 21:41:58.026][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:41:58.028][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:41:58.030][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 21:41:58.032][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 21:41:58.035][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-16 21:41:58.040][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:58.042][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-16 21:41:58.044][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:58.047][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:41:58.049][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:58.051][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:41:58.053][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 21:41:58.055][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 21:41:58.057][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-16 21:41:58.059][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:41:58.061][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:41:58.063][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-16 21:41:58.066][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:41:58.068][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 21:41:58.070][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:58.072][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-16 21:41:58.074][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 21:41:58.076][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:41:58.078][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:41:58.080][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:41:58.082][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:41:58.084][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:41:58.085][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:41:58.087][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 21:41:58.089][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:41:58.091][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:41:58.093][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 21:41:58.095][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 21:41:58.103][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 21:41:58.106][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.119][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[2025-11-16 21:41:58.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.137][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[2025-11-16 21:41:58.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.146][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.DEBUG[2025-11-16 21:41:58.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.155][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[2025-11-16 21:41:58.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.226][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[2025-11-16 21:41:58.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.234][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[2025-11-16 21:41:58.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.241][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[2025-11-16 21:41:58.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.251][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-16 21:41:58.261][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-16 21:41:58.265][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-16 21:41:58.269][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-16 21:41:58.273][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-16 21:41:58.278][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-16 21:41:58.283][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-16 21:41:58.288][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-16 21:41:58.293][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-16 21:41:58.297][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-16 21:41:58.302][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-16 21:41:58.306][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-16 21:41:58.311][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-16 21:41:58.316][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-16 21:41:58.321][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-16 21:41:58.325][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-16 21:41:58.330][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-16 21:41:58.335][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-16 21:41:58.341][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-16 21:41:58.346][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-16 21:41:58.353][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-16 21:41:58.357][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-16 21:41:58.362][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-16 21:41:58.368][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-16 21:41:58.374][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-16 21:41:58.379][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-16 21:41:58.385][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-16 21:41:58.410][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-16 21:41:58.416][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-16 21:41:58.421][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-16 21:41:58.426][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-16 21:41:58.431][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-16 21:41:58.435][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-16 21:41:58.440][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-16 21:41:58.446][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-16 21:41:58.450][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-16 21:41:58.455][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-16 21:41:58.460][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-16 21:41:58.465][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-16 21:41:58.469][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-16 21:41:58.475][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-16 21:41:58.479][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-16 21:41:58.484][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-16 21:41:58.489][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-16 21:41:58.493][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-16 21:41:58.498][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-16 21:41:58.502][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-16 21:41:58.507][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-16 21:41:58.511][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-16 21:41:58.515][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-16 21:41:58.519][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-16 21:41:58.522][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-16 21:41:58.525][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-16 21:41:58.529][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-16 21:41:58.532][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-16 21:41:58.535][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-16 21:41:58.541][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-16 21:41:58.545][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-16 21:41:58.550][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-16 21:41:58.554][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-16 21:41:58.558][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-16 21:41:58.563][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-16 21:41:58.567][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-16 21:41:58.570][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-16 21:41:58.574][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-16 21:41:58.577][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-16 21:41:58.580][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-16 21:41:58.583][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-16 21:41:58.586][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-16 21:41:58.589][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-16 21:41:58.592][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-16 21:41:58.595][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-16 21:41:58.598][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-16 21:41:58.601][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-16 21:41:58.603][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-16 21:41:58.606][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-16 21:41:58.609][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-16 21:41:58.611][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-16 21:41:58.614][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-16 21:41:58.616][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-16 21:41:58.619][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-16 21:41:58.621][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-16 21:41:58.624][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-16 21:41:58.638][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-16 21:41:58.642][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-11-16 21:41:58.649][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 21:41:58.652][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.655][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:41:58.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:41:58.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:41:58.684][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:41:58.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:41:58.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:41:58.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:41:58.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:41:58.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:41:58.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:41:58.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:41:58.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:41:58.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:41:58.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:41:58.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:41:58.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:41:58.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.757][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[2025-11-16 21:41:58.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:41:58.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:41:58.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.769][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[2025-11-16 21:41:58.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:41:58.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:41:58.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:41:58.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:41:58.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:41:58.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:41:58.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:41:58.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:41:58.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:41:58.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:41:58.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:41:58.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:41:58.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:41:58.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:41:58.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:41:58.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:58.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:58.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:58.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:41:58.923][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-16 21:41:58.952][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-16 21:41:58.959][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:41:58.964][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-16 21:41:58.967][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:58.971][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:41:58.974][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:58.977][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:41:58.980][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:58.983][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-16 21:41:58.985][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-16 21:41:58.987][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:41:58.989][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:58.992][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-16 21:41:58.994][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:41:58.996][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-16 21:41:58.996][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-16 21:41:58.996][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-16 21:41:58.996][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-16 21:41:58.996][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-16 21:41:58.996][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-16 21:41:58.996][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-16 21:41:58.996][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-16 21:41:58.996][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-16 21:41:58.996][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-16 21:41:58.996][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-16 21:41:58.999][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-16 21:41:59.001][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 21:41:59.001][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 21:41:59.001][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 21:41:59.003][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-16 21:41:59.005][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:41:59.006][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:41:59.008][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:41:59.010][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:41:59.011][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:41:59.013][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:41:59.015][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-16 21:41:59.015][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-16 21:41:59.017][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:41:59.018][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:41:59.020][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-16 21:41:59.022][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-16 21:41:59.022][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-16 21:41:59.039][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-16 21:41:59.045][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-16 21:41:59.049][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-16 21:41:59.053][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-16 21:41:59.057][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-16 21:41:59.061][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-16 21:41:59.118][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-16 21:41:59.152][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-16 21:41:59.172][biodb::testThat]
biodb.INFO [2025-11-16 21:41:59.175][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-11-16 21:41:59.177][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:41:59.180][biodb::testThat]
biodb.TRACE[2025-11-16 21:41:59.191][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-11-16 21:41:59.200][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:41:59.217][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:41:59.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:41:59.288][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:41:59.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:41:59.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:41:59.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:41:59.368][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:41:59.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:41:59.423][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:41:59.430][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:41:59.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.441][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:41:59.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:41:59.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.547][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:41:59.554][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:41:59.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.568][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.717][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:41:59.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:41:59.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.730][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:41:59.733][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:41:59.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.739][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.743][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:41:59.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:41:59.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.754][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:41:59.806][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:41:59.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.821][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.831][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:41:59.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:41:59.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.847][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:41:59.851][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:41:59.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.857][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.862][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:41:59.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:41:59.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.875][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:41:59.878][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:41:59.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.883][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.886][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:41:59.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:41:59.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.897][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:41:59.899][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:41:59.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.904][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.907][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:41:59.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:41:59.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.917][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:41:59.919][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:41:59.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.923][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:41:59.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:41:59.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.934][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:41:59.936][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:41:59.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.940][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.944][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:41:59.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:41:59.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.954][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:41:59.957][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:41:59.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.961][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.964][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:41:59.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:41:59.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.972][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:41:59.974][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:41:59.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.977][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.980][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:41:59.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:41:59.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:41:59.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:41:59.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:41:59.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:41:59.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:41:59.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:41:59.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:00.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:00.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:00.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:00.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:00.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:00.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:00.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:00.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:00.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:00.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:00.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:00.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:00.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:00.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:00.143][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-11-16 21:42:00.151][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:00.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:00.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.165][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:00.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:00.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.264][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:00.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:00.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.276][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:00.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:00.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:00.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:00.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:00.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:00.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.300][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-16 21:42:00.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-16 21:42:00.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.307][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-16 21:42:00.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-16 21:42:00.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.316][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-16 21:42:00.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-16 21:42:00.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.325][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-16 21:42:00.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-16 21:42:00.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:00.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:00.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:00.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:00.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:00.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:00.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:00.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:00.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:00.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:00.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:00.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:00.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:00.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:00.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:00.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:00.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:00.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:00.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:00.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:00.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.551][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:00.554][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:00.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.568][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:00.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:00.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.680][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.889][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.898][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:00.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.953][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:00.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:00.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:00.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:00.993][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:01.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:01.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.031][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:01.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:01.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.071][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:01.080][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:01.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.095][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.105][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:01.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:01.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.168][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:01.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:01.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.200][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:01.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:01.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.243][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:01.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:01.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.280][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:01.284][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:01.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.299][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.306][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:01.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:01.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.378][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:01.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:01.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:01.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:01.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:01.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:01.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.461][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:01.469][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:01.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.482][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.489][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:01.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:01.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:01.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:01.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:01.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:01.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:01.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:01.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.635][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:01.638][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:01.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.643][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.645][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:01.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:01.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.672][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:01.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:01.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.684][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:01.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:01.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.695][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:01.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:01.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.713][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:01.719][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:01.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.724][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.732][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:01.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:01.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.823][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-16 21:42:01.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:01.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.857][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-16 21:42:01.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:01.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.892][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-16 21:42:01.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:01.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.925][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-16 21:42:01.933][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:01.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.967][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:01.971][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-16 21:42:01.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:01.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:01.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.046][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:02.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:02.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.073][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:02.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:02.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.084][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:02.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:02.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.095][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:02.102][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:02.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.107][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.114][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:02.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:02.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.182][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:02.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:02.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.202][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:02.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:02.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.214][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:02.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:02.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.228][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:02.231][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:02.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.240][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.247][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:02.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:02.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:02.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:02.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.306][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:02.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:02.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.315][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:02.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:02.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.322][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:02.324][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:02.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.327][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.329][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:02.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:02.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.358][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:02.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:02.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.388][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:02.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:02.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.412][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:02.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:02.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.436][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:02.439][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:02.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.443][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.445][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:02.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:02.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.470][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:02.473][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:02.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.478][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.489][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:02.492][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:02.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.497][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.508][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:02.512][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:02.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.518][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.532][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:02.536][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:02.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.544][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.559][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:02.563][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:02.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.575][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.611][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:02.623][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:02.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.638][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.706][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:02.714][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:02.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.725][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.739][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:02.743][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:02.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.749][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.763][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-16 21:42:02.767][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:02.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.774][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.787][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:02.791][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:02.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.798][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:02.811][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:02.815][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:02.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:02.820][ef$get] fields variable is a list.
biodb.INFO [2025-11-16 21:42:02.837][biodb::testThat]
biodb.INFO [2025-11-16 21:42:02.840][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-11-16 21:42:02.843][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:02.846][biodb::testThat]
biodb.DEBUG[2025-11-16 21:42:02.882][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-11-16 21:42:02.891][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:02.900][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:02.911][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-11-16 21:42:02.915][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:02.970][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:02.973][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:02.978][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:02.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:02.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:02.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:02.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:03.001][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:03.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:03.010][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:03.013][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:03.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.017][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:03.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:03.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.067][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:03.071][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:03.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.078][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.083][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:03.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:03.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.096][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:03.099][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:03.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.105][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.109][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:03.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:03.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.120][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:03.122][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:03.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.128][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.132][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:03.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:03.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.162][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:03.165][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:03.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.171][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.175][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:03.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:03.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.187][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:03.190][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:03.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.195][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.199][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:03.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:03.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.210][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:03.213][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:03.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.218][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.222][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:03.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:03.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.232][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:03.234][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:03.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.239][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:03.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:03.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.252][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:03.253][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:03.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.256][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.259][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:03.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:03.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.267][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:03.269][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:03.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.273][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.277][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:03.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:03.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.287][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:03.289][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:03.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.292][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.294][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:03.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:03.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:03.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:03.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:03.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:03.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:03.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:03.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.321][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:03.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:03.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:03.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:03.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:03.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:03.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:03.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:03.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:03.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:03.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:03.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:03.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:03.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:03.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:03.370][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-11-16 21:42:03.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-11-16 21:42:03.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-11-16 21:42:03.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-11-16 21:42:03.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-11-16 21:42:03.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-11-16 21:42:03.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-11-16 21:42:03.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-16 21:42:03.435][biodb::testThat]
biodb.INFO [2025-11-16 21:42:03.438][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-11-16 21:42:03.441][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:03.443][biodb::testThat]
biodb.TRACE[2025-11-16 21:42:03.452][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:03.456][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:03.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.463][ef$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:03.467][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-11-16 21:42:03.570][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:03.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:03.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.584][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:03.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:03.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.596][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:03.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:03.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:03.614][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-11-16 21:42:03.628][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-16 21:42:03.681][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:03.693][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-16 21:42:03.698][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-16 21:42:03.739][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 [2025-11-16 21:42:03.807][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:03.823][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-16 21:42:03.827][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:03.836][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-11-16 21:42:03.877][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:03.881][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:03.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.887][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:03.890][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:03.892][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:03.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:03.897][ef$get] fields variable is a list.
biodb.INFO [2025-11-16 21:42:03.907][biodb::testThat]
biodb.INFO [2025-11-16 21:42:03.910][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-11-16 21:42:03.913][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:03.916][biodb::testThat]
biodb.TRACE[2025-11-16 21:42:04.016][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:04.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:04.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.030][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:04.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:04.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.044][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:04.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:04.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 21:42:04.193][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 [2025-11-16 21:42:04.200][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:04.208][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-16 21:42:04.211][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-11-16 21:42:04.251][biodb::testThat]
biodb.INFO [2025-11-16 21:42:04.255][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-11-16 21:42:04.258][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:04.261][biodb::testThat]
biodb.TRACE[2025-11-16 21:42:04.333][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:04.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:04.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.344][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:04.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:04.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.353][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:04.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:04.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.361][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:04.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:04.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.373][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:04.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:04.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.384][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:04.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:04.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.394][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-16 21:42:04.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-16 21:42:04.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.405][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-16 21:42:04.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-16 21:42:04.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.441][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-16 21:42:04.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-16 21:42:04.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.455][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-16 21:42:04.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-16 21:42:04.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.528][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:04.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:04.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.540][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:04.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:04.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.551][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:04.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:04.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.561][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:04.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:04.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:04.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:04.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:04.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:04.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.591][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-16 21:42:04.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-16 21:42:04.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.598][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-16 21:42:04.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-16 21:42:04.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.605][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-16 21:42:04.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-16 21:42:04.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:04.611][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-16 21:42:04.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-16 21:42:04.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:04.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-16 21:42:04.632][biodb::testThat]
biodb.INFO [2025-11-16 21:42:04.636][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-11-16 21:42:04.638][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:04.641][biodb::testThat]
biodb.INFO [2025-11-16 21:42:04.661][biodb::testThat]
biodb.INFO [2025-11-16 21:42:04.664][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-11-16 21:42:04.667][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:04.669][biodb::testThat]
biodb.INFO [2025-11-16 21:42:04.687][biodb::testThat]
biodb.INFO [2025-11-16 21:42:04.690][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-11-16 21:42:04.694][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:04.696][biodb::testThat]
biodb.DEBUG[2025-11-16 21:42:04.706][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-11-16 21:42:05.636][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-11-16 21:42:06.237][biodb::testThat]
biodb.INFO [2025-11-16 21:42:06.241][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-11-16 21:42:06.245][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:06.248][biodb::testThat]
biodb.TRACE[2025-11-16 21:42:06.265][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:06.269][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:06.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:06.279][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:06.286][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:06.294][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:06.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:06.305][ef$get] fields variable is a list.
biodb.INFO [2025-11-16 21:42:06.317][biodb::testThat]
biodb.INFO [2025-11-16 21:42:06.321][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-11-16 21:42:06.333][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:06.341][biodb::testThat]
biodb.TRACE[2025-11-16 21:42:06.414][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:06.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:06.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:06.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:06.448][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:06.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:06.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:06.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:06.491][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:06.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:06.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:06.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 21:42:07.142][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 [2025-11-16 21:42:07.149][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:07.158][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-16 21:42:07.161][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-16 21:42:07.728][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 [2025-11-16 21:42:07.736][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:07.743][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-16 21:42:07.747][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-11-16 21:42:07.784][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-16 21:42:07.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-16 21:42:07.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:07.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:07.820][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:07.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:07.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:07.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:07.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:07.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:07.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:07.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:07.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:07.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:07.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:07.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:07.916][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:07.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:07.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:07.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:07.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:07.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:07.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:07.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 21:42:07.992][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 [2025-11-16 21:42:08.000][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:08.010][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-16 21:42:08.017][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:08.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:08.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:08.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:08.081][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:08.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:08.097][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:08.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:08.108][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-11-16 21:42:08.396][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:08.401][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:08.418][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-11-16 21:42:08.426][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:08.438][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:08.448][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:08.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:08.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:08.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:08.502][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:08.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:08.512][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:08.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:08.521][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:08.525][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:08.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.530][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:08.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:08.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.563][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:08.570][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:08.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.580][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.588][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:08.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:08.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.616][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:08.619][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:08.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.633][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.646][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:08.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:08.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.672][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:08.680][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:08.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.689][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.697][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:08.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:08.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.723][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:08.726][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:08.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.731][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.735][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:08.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:08.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.752][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:08.756][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:08.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.770][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.778][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:08.784][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:08.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.803][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.813][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:08.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:08.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.831][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:08.835][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:08.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.840][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:08.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:08.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.856][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:08.859][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:08.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.864][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.868][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:08.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:08.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.878][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:08.880][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:08.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.885][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.890][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:08.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:08.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.906][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:08.910][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:08.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.919][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.924][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:08.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:08.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:08.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:08.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:08.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:08.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:08.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:08.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:09.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:09.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:09.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:09.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:09.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:09.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:09.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:09.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:09.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:09.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:09.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:09.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:09.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:09.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:09.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:09.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:09.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:09.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:09.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:09.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:09.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:09.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:09.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:09.115][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-11-16 21:42:09.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:09.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:09.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:09.160][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:09.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:09.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:09.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:09.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:09.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 21:42:09.180][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:09.185][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:09.193][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-16 21:42:09.199][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:09.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:09.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:09.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:09.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:09.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:09.301][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:09.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:09.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:09.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:09.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:09.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:09.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:09.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:09.362][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:09.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:09.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:09.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:09.407][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:09.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:09.443][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:09.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:09.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:09.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:09.474][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-11-16 21:42:09.478][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:09.482][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:09.496][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-11-16 21:42:09.502][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:09.510][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:09.517][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:09.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:09.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:09.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:09.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:09.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:09.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:09.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:09.631][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:09.646][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:09.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.665][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:09.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:09.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:09.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:09.723][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:09.732][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:09.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.812][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:09.826][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:09.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:09.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:09.859][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:09.871][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:09.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.888][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:09.902][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:09.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:09.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:09.940][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:09.949][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:09.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:09.967][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:09.986][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:09.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:10.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.033][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:10.041][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:10.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.061][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.076][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:10.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:10.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.106][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:10.114][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:10.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.123][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.131][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:10.138][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:10.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.153][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.163][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:10.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:10.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.203][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:10.211][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:10.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.221][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.228][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:10.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:10.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.257][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:10.264][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:10.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.274][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.289][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:10.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:10.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.315][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:10.319][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:10.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.335][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.343][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:10.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:10.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.380][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:10.389][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:10.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.407][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.419][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:10.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:10.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.450][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:10.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:10.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:10.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:10.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:10.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:10.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:10.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:10.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:10.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:10.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:10.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:10.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:10.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:10.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:10.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:10.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:10.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:10.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:10.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:10.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:10.743][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-11-16 21:42:10.755][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:10.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:10.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.786][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:10.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:10.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:10.828][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:10.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:10.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:10.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 21:42:11.079][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 [2025-11-16 21:42:11.110][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:11.135][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-16 21:42:11.144][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:11.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:11.175][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:11.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:11.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:11.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:11.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:11.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:11.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:11.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:11.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:11.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:11.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:11.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:11.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:11.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:11.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:11.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:11.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:11.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:11.431][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:11.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:11.453][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-11-16 21:42:11.464][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:11.474][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:11.488][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-11-16 21:42:11.496][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:11.505][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:11.509][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:11.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:11.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:11.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:11.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:11.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:11.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:11.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:11.543][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:11.546][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:11.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.550][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:11.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:11.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.562][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:11.564][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:11.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.568][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.571][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:11.573][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:11.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.581][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.590][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:11.594][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:11.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.608][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.620][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:11.623][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:11.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.638][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.651][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:11.655][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:11.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.675][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.680][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:11.696][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:11.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.715][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.726][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:11.735][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:11.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.754][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.759][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:11.764][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:11.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.771][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.775][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:11.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:11.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.787][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:11.790][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:11.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.794][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.797][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:11.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:11.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.805][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:11.807][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:11.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.810][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:11.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:11.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:11.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:11.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:11.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:11.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:11.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:11.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:11.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:11.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:11.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:11.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:11.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:12.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:12.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:12.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:12.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:12.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:12.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:12.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:12.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:12.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:12.119][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-11-16 21:42:12.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.163][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.203][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:12.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:12.304][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:12.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:12.337][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:12.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:12.343][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:12.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:12.349][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-11-16 21:42:12.352][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:12.356][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:12.372][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-11-16 21:42:12.384][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:12.392][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:12.403][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:12.418][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:12.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:12.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:12.462][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:12.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:12.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:12.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:12.499][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:12.503][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:12.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.509][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:12.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:12.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.523][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:12.526][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:12.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.530][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.533][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:12.536][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:12.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.540][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.544][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:12.546][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:12.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.550][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.554][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:12.556][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:12.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.560][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.563][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:12.566][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:12.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.570][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.573][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:12.575][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.580][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.583][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:12.585][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:12.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.589][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.593][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:12.595][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:12.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.599][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.604][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:12.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:12.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.613][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:12.615][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:12.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.619][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.623][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:12.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:12.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.633][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:12.637][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:12.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.643][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:12.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:12.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:12.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:12.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:12.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:12.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:12.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:12.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:12.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:12.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:12.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:12.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:12.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:12.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:12.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:12.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:12.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:12.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:12.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:12.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:12.811][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-11-16 21:42:12.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.831][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:12.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:12.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:12.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:12.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:12.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:12.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:12.880][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:12.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:12.885][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-11-16 21:42:12.887][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:12.891][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:12.907][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-11-16 21:42:12.914][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:12.924][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:12.929][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:12.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:12.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:12.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:12.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:12.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:12.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:12.968][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[2025-11-16 21:42:12.976][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:12.980][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:12.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.986][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:12.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:12.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:12.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:12.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.002][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:13.004][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:13.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.009][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.012][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:13.014][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:13.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.018][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.022][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:13.025][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:13.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.030][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.033][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:13.035][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:13.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.039][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.043][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:13.045][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:13.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.049][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.052][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:13.054][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:13.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.058][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.061][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:13.063][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:13.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.067][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.070][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:13.072][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:13.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.076][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.080][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:13.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:13.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.090][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:13.093][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:13.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.098][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.102][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:13.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:13.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.115][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:13.118][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:13.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.124][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:13.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:13.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:13.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:13.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:13.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:13.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.191][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:13.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:13.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:13.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:13.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:13.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:13.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:13.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:13.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:13.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:13.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:13.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:13.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:13.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:13.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:13.327][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-11-16 21:42:13.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:13.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:13.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:13.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:13.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:13.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:13.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.358][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:13.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:13.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:13.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:13.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:13.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:13.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:13.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:13.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:13.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:13.392][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:13.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:13.397][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-11-16 21:42:13.399][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:13.403][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:13.416][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-11-16 21:42:13.427][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:13.436][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:13.444][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:13.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:13.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:13.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:13.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:13.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:13.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:13.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:13.478][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:13.480][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:13.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.484][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:13.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:13.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.495][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:13.497][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:13.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.500][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.503][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:13.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:13.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.511][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:13.514][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:13.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.518][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.521][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:13.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:13.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.530][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:13.532][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:13.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.536][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.539][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:13.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:13.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.548][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:13.550][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:13.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.554][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.557][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:13.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:13.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.568][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:13.571][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:13.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.576][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.580][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:13.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:13.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.592][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:13.595][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:13.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.601][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.604][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:13.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:13.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.616][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:13.640][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:13.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.646][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:13.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:13.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.663][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:13.666][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:13.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.672][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.676][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:13.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:13.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.688][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:13.692][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:13.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.697][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.701][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:13.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:13.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.711][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:13.714][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:13.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.718][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.721][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:13.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:13.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:13.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:13.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:13.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:13.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:13.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:13.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:13.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:13.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:13.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:13.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:13.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:13.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:13.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:13.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:13.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:13.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:13.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:13.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:13.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:13.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:13.800][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-11-16 21:42:13.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:13.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:13.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:13.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:13.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:13.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:13.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:13.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:13.826][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:13.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:13.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:13.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:13.846][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:13.849][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[2025-11-16 21:42:13.852][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-11-16 21:42:13.854][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:13.858][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:13.873][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-11-16 21:42:13.881][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:13.884][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:13.896][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:13.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:13.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:13.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:13.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:13.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:13.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:13.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:13.972][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:13.978][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:13.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:13.987][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:13.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:13.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:13.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.003][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:14.006][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:14.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.012][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.016][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:14.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:14.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.028][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:14.032][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:14.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.037][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.042][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:14.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:14.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.055][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:14.083][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:14.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.090][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.094][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:14.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:14.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.108][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:14.111][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:14.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.117][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.120][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:14.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:14.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.133][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:14.136][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:14.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.142][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.146][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:14.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:14.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.159][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:14.162][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:14.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.167][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.170][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:14.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:14.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.177][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:14.179][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:14.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.182][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:14.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:14.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.194][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:14.196][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:14.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.200][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.203][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:14.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:14.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.209][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:14.211][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:14.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.214][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.216][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:14.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:14.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.223][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:14.225][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:14.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.227][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.230][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:14.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:14.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:14.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:14.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:14.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:14.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:14.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:14.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:14.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:14.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:14.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:14.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:14.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:14.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:14.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:14.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:14.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:14.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:14.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:14.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:14.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:14.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:14.307][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-11-16 21:42:14.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:14.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:14.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:14.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:14.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.322][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:14.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:14.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:14.329][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:14.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:14.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:14.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:14.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:14.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:14.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:14.359][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-11-16 21:42:14.362][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:14.367][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:14.383][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-11-16 21:42:14.391][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:14.401][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:14.411][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:14.418][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:14.422][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:14.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:14.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:14.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:14.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:14.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:14.477][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:14.480][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:14.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.486][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:14.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:14.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.501][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:14.509][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:14.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.519][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.527][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:14.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:14.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.540][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:14.543][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:14.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.548][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.551][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:14.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:14.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.559][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:14.561][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:14.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.570][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.580][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:14.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:14.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.594][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:14.598][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:14.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.604][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.608][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:14.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:14.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.617][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:14.619][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:14.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.622][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.624][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:14.626][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:14.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.629][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.631][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:14.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:14.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.638][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:14.639][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:14.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.642][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.645][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:14.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:14.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.652][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:14.654][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:14.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.657][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.660][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:14.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:14.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.668][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:14.670][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:14.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.673][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.675][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:14.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:14.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.682][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:14.684][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:14.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.687][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.689][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:14.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:14.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:14.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:14.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:14.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:14.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:14.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:14.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:14.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:14.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:14.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:14.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:14.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:14.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:14.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:14.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:14.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:14.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:14.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:14.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:14.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:14.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:14.779][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-11-16 21:42:14.783][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:14.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:14.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:14.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:14.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.828][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:14.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:14.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:14.840][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:14.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:14.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:14.857][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:14.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:14.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:14.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:14.869][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-11-16 21:42:14.871][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:14.875][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:14.893][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-11-16 21:42:14.897][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:14.901][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:14.904][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:14.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:14.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:14.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:14.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:14.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:14.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:14.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:14.936][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:14.940][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:14.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.945][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:14.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:14.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.959][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:14.961][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:14.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.965][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.967][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:14.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:14.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.975][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:14.976][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:14.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.979][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.982][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:14.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:14.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.988][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:14.990][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:14.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:14.993][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:14.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:14.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:14.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.003][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:15.004][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:15.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.008][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.010][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:15.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:15.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.017][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:15.018][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:15.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.022][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.024][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:15.026][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:15.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.029][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.031][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:15.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:15.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.038][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:15.040][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:15.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.043][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.046][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:15.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:15.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.053][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:15.054][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:15.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.058][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.061][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:15.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:15.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.068][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:15.070][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:15.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.073][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.076][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:15.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:15.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.083][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:15.084][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:15.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.088][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.090][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:15.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:15.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.099][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:15.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:15.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:15.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:15.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:15.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:15.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.129][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:15.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:15.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:15.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:15.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:15.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:15.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:15.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:15.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:15.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:15.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:15.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:15.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:15.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:15.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:15.226][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-11-16 21:42:15.229][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:15.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:15.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:15.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:15.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.246][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:15.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:15.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:15.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:15.256][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:15.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:15.270][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:15.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:15.277][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:15.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:15.282][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-11-16 21:42:15.285][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:15.288][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:15.302][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-11-16 21:42:15.309][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:15.320][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:15.324][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:15.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:15.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:15.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:15.374][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:15.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:15.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:15.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:15.406][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:15.415][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:15.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.429][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:15.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:15.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.444][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:15.446][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:15.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.451][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.455][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:15.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:15.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.465][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:15.467][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:15.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.472][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.475][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:15.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:15.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.484][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:15.487][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:15.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.491][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.494][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:15.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:15.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.503][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:15.506][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:15.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.510][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.513][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:15.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:15.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.522][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:15.524][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:15.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.528][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.531][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:15.534][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:15.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.538][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.541][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:15.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:15.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.551][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:15.553][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:15.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.558][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:15.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:15.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.576][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:15.580][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:15.583][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.586][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.591][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:15.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:15.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.621][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:15.625][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:15.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.632][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.636][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:15.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:15.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.753][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:15.758][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:15.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.765][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.770][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:15.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:15.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:15.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:15.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:15.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:15.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:15.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:15.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:15.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:15.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:15.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:15.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:15.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:15.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:15.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:15.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:15.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:15.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:15.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:15.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:15.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:15.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:15.901][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-11-16 21:42:15.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:15.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:15.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:15.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:15.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:15.917][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:15.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:15.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:15.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:15.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:15.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:15.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:15.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:15.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:15.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:15.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:15.951][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-11-16 21:42:15.954][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:15.957][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:15.971][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-11-16 21:42:15.979][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:15.991][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:15.995][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:16.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:16.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:16.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:16.017][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:16.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:16.026][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:16.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:16.041][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:16.044][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:16.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.050][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:16.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:16.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.062][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:16.064][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:16.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.067][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.070][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:16.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:16.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.079][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:16.082][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:16.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.087][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.096][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:16.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:16.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.134][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:16.139][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:16.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.147][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.152][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:16.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:16.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.170][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:16.174][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:16.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.181][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.187][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:16.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:16.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.203][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:16.207][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:16.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.215][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.220][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:16.224][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:16.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.231][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.236][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:16.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:16.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.287][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:16.292][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:16.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.299][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.304][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:16.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:16.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.319][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:16.323][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:16.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.330][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.336][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:16.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:16.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.351][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:16.355][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:16.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.361][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.366][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:16.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:16.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.381][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:16.385][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:16.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.391][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.394][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:16.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:16.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:16.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:16.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:16.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:16.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:16.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:16.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:16.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:16.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:16.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:16.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:16.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:16.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:16.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:16.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:16.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:16.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:16.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:16.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:16.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:16.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:16.481][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-11-16 21:42:16.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:16.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:16.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:16.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:16.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:16.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:16.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:16.505][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:16.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:16.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:16.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:16.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:16.524][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:16.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:16.529][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-11-16 21:42:16.531][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:16.535][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:16.551][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-11-16 21:42:16.559][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:16.572][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:16.580][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:16.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:16.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:16.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:16.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:16.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:16.636][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:16.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:16.649][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:16.653][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:16.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.661][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:16.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:16.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.681][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:16.685][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:16.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.690][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.695][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:16.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:16.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.708][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:16.712][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:16.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.717][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.721][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:16.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:16.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.764][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:16.770][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:16.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.781][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.786][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:16.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:16.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.804][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:16.809][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:16.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.817][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.822][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:16.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:16.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.837][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:16.840][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:16.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.858][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.865][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:16.870][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:16.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.878][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.884][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:16.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:16.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.902][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:16.910][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:16.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.921][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:16.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:16.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:16.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:16.974][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:16.980][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:16.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.006][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.022][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:17.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:17.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.060][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:17.064][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:17.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.071][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.075][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:17.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:17.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.089][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:17.093][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:17.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.109][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.122][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:17.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:17.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:17.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:17.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:17.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:17.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:17.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:17.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:17.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:17.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:17.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:17.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:17.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:17.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:17.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:17.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:17.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:17.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:17.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:17.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:17.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:17.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:17.418][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-11-16 21:42:17.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:17.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:17.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:17.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:17.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:17.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:17.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:17.501][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:17.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:17.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:17.524][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:17.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:17.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:17.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:17.540][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-11-16 21:42:17.544][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:17.550][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:17.564][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-11-16 21:42:17.568][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:17.573][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:17.577][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:17.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:17.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:17.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:17.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:17.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:17.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:17.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:17.669][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:17.674][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:17.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.681][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:17.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:17.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.700][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:17.704][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:17.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.711][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.715][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:17.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:17.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.728][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:17.732][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:17.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.738][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.742][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:17.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:17.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.755][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:17.758][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:17.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.761][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.764][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:17.766][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:17.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.769][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.771][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:17.773][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:17.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.776][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.779][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:17.780][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:17.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.784][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.786][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:17.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:17.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.793][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:17.796][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:17.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.799][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:17.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:17.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.808][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:17.810][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:17.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.813][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.816][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:17.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:17.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.823][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:17.825][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:17.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.828][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.830][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:17.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:17.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.837][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:17.839][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:17.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.842][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:17.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:17.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:17.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:17.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:17.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:17.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:17.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:17.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:17.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:17.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:17.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:17.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:17.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:17.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:17.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:17.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:17.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:17.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:17.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:17.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:17.919][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-11-16 21:42:17.922][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:17.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:17.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.930][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:17.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:17.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:17.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:17.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:17.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:17.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:17.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:17.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:17.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:17.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:17.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:17.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:17.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:17.972][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-11-16 21:42:17.974][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:17.978][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:18.004][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-11-16 21:42:18.010][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:18.015][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:18.019][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:18.024][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:18.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:18.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:18.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:18.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:18.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:18.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:18.060][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.064][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.071][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.091][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:18.095][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:18.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.101][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.105][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:18.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:18.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.114][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:18.117][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:18.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.120][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.123][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:18.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:18.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.130][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:18.132][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:18.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.135][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.137][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:18.139][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:18.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.141][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.144][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:18.145][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:18.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.149][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.151][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:18.153][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:18.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.157][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.159][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:18.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:18.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.166][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:18.168][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:18.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.170][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:18.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:18.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.179][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:18.181][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:18.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.183][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.186][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:18.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:18.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.193][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:18.195][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:18.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.198][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.201][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:18.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:18.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.208][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:18.209][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:18.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.212][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:18.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:18.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:18.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:18.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:18.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:18.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:18.298][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-11-16 21:42:18.300][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:18.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:18.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:18.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:18.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:18.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:18.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:18.345][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:18.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:18.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:18.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:18.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:18.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:18.381][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[2025-11-16 21:42:18.384][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-11-16 21:42:18.388][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:18.393][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:18.401][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-11-16 21:42:18.406][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:18.410][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:18.414][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:18.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:18.423][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:18.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:18.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:18.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:18.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:18.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:18.456][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.460][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.466][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.480][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:18.483][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:18.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.487][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.490][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:18.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:18.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.498][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:18.500][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:18.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.504][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.507][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:18.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:18.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.515][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:18.517][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:18.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.521][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.524][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:18.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:18.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.533][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:18.535][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:18.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.538][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.541][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:18.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:18.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.549][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:18.552][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:18.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.555][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.558][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:18.560][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:18.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.563][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.566][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:18.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:18.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.573][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:18.575][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:18.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.579][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:18.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:18.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.589][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:18.591][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:18.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.595][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.598][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:18.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:18.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.605][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:18.607][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:18.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.611][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.614][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:18.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:18.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.623][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:18.626][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:18.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.632][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.635][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:18.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:18.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:18.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:18.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:18.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:18.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:18.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:18.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:18.737][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-11-16 21:42:18.740][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:18.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:18.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.750][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:18.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:18.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.760][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:18.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:18.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:18.770][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:18.771][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:18.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:18.782][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:18.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:18.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:18.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:18.792][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-11-16 21:42:18.794][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:18.797][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:18.811][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-11-16 21:42:18.815][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:18.823][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:18.831][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:18.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:18.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:18.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:18.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:18.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:18.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:18.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:18.872][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.875][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.880][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:18.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:18.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.892][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:18.894][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:18.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.897][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.900][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:18.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:18.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.907][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:18.909][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:18.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.912][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.915][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:18.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:18.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.922][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:18.924][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:18.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.928][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.930][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:18.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:18.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.938][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:18.939][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:18.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.943][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.946][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:18.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:18.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.953][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:18.956][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:18.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.959][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.962][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:18.964][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:18.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.968][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.970][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:18.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:18.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.980][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:18.982][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:18.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.986][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:18.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:18.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:18.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:18.996][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:18.997][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:18.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.001][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.005][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:19.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:19.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.012][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:19.014][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:19.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.017][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.020][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:19.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:19.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.027][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:19.028][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:19.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.032][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.034][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:19.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:19.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:19.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:19.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:19.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:19.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:19.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:19.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:19.158][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-11-16 21:42:19.160][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:19.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:19.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:19.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:19.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:19.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:19.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:19.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:19.181][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:19.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:19.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:19.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:19.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:19.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:19.202][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-11-16 21:42:19.204][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:19.207][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:19.218][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-11-16 21:42:19.222][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:19.225][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:19.229][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:19.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:19.235][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:19.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:19.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:19.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:19.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:19.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:19.259][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.262][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.266][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.277][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:19.279][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:19.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.283][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.285][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:19.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:19.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.293][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:19.295][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:19.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.299][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.301][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:19.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:19.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.310][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:19.313][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:19.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.317][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:19.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:19.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.328][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:19.329][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:19.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.333][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.335][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:19.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:19.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.344][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:19.346][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:19.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.349][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.352][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:19.354][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:19.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.357][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.360][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:19.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:19.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.367][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:19.369][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:19.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.388][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:19.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:19.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.408][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:19.411][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:19.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.418][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.423][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:19.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:19.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.438][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:19.441][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:19.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.447][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.451][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:19.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:19.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.465][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:19.469][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:19.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.476][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.481][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:19.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:19.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:19.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:19.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:19.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:19.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:19.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:19.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:19.569][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-11-16 21:42:19.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:19.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:19.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:19.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:19.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:19.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:19.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:19.593][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:19.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:19.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:19.607][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:19.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:19.614][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:19.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:19.621][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-11-16 21:42:19.624][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:19.628][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:19.645][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-11-16 21:42:19.652][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:19.660][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:19.664][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:19.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:19.673][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:19.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:19.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:19.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:19.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:19.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:19.707][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.710][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.715][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.730][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:19.733][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:19.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.741][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.745][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:19.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:19.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.754][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:19.756][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:19.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.760][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.763][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:19.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:19.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.771][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:19.773][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:19.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.776][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.797][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:19.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:19.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.815][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:19.818][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:19.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.825][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.829][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:19.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:19.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.843][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:19.846][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:19.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.852][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.857][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:19.860][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:19.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.867][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.871][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:19.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:19.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.888][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:19.892][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:19.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.898][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:19.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:19.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.912][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:19.914][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:19.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.917][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.920][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:19.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:19.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.929][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:19.931][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:19.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.934][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.937][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:19.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:19.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.945][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:19.946][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:19.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.948][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.950][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:19.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:19.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:19.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:19.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:19.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:19.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:19.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:19.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:19.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:19.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:19.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:19.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:20.021][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-11-16 21:42:20.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.032][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:20.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:20.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:20.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:20.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:20.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:20.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:20.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:20.079][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-11-16 21:42:20.081][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:20.087][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:20.096][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-11-16 21:42:20.100][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:20.104][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:20.108][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:20.112][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:20.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:20.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:20.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:20.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:20.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:20.140][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[2025-11-16 21:42:20.146][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.172][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.182][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.203][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:20.207][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:20.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.214][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.219][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:20.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:20.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.232][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:20.235][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:20.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.239][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.242][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:20.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:20.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.254][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:20.258][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:20.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.264][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.267][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:20.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:20.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.275][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:20.276][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:20.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.280][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.282][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:20.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:20.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.290][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:20.292][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:20.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.295][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.298][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:20.299][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.303][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.306][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:20.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.313][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:20.315][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:20.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.318][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:20.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:20.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.327][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:20.329][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:20.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.332][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.335][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:20.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:20.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.342][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:20.344][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:20.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.347][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.350][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:20.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:20.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.357][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:20.359][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:20.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.362][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.365][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:20.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:20.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:20.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:20.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:20.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:20.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:20.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:20.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:20.459][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-11-16 21:42:20.461][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:20.481][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:20.483][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:20.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:20.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:20.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:20.524][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:20.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:20.531][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-11-16 21:42:20.534][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:20.539][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:20.547][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-11-16 21:42:20.551][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:20.554][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:20.557][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:20.560][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:20.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:20.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:20.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:20.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:20.588][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:20.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:20.600][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.603][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.609][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.621][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:20.623][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:20.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.627][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.630][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:20.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:20.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.636][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:20.637][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:20.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.639][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.641][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:20.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:20.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.648][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:20.650][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:20.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.653][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:20.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:20.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.663][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:20.664][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:20.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.667][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.670][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:20.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:20.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.677][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:20.679][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:20.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.682][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.685][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:20.686][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.689][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.692][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:20.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.699][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:20.701][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:20.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.704][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.706][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:20.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:20.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.714][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:20.716][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:20.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.720][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.723][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:20.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:20.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.731][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:20.733][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:20.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.736][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.739][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:20.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:20.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.747][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:20.749][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:20.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.753][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.757][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:20.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:20.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:20.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:20.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:20.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:20.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:20.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:20.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:20.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:20.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:20.874][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-11-16 21:42:20.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:20.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:20.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:20.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:20.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:20.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:20.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:20.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:20.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:20.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:20.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:20.945][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-11-16 21:42:20.948][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:20.952][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:20.959][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-11-16 21:42:20.962][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:20.965][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:20.968][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:20.972][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:20.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:20.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:20.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:20.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:20.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:20.995][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.TRACE[2025-11-16 21:42:21.001][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:21.004][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:21.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.008][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:21.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:21.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.021][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:21.024][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:21.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.028][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.030][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:21.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:21.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.039][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:21.041][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:21.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.044][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.047][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:21.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:21.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.055][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:21.057][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:21.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.060][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.063][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:21.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:21.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.070][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:21.072][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:21.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.075][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.078][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:21.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:21.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.086][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:21.088][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:21.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.091][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.094][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:21.096][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.100][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.103][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:21.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.112][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:21.115][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:21.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.121][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:21.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:21.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.132][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:21.134][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:21.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.138][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.141][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:21.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:21.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.153][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:21.155][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:21.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.159][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.162][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:21.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:21.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.170][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:21.172][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:21.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.175][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.178][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:21.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:21.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:21.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:21.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:21.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:21.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:21.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:21.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:21.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:21.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:21.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:21.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:21.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:21.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:21.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:21.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:21.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:21.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:21.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:21.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:21.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:21.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:21.292][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-11-16 21:42:21.294][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.301][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 21:42:21.350][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:21.357][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:21.364][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-16 21:42:21.366][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:21.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:21.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:21.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:21.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:21.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:21.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:21.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:21.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.412][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:21.419][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:21.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:21.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:21.432][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:21.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:21.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:21.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:21.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.461][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.477][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:21.485][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:21.486][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:21.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:21.497][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:21.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:21.502][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:21.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:21.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.535][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:21.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:21.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:21.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:21.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:21.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:21.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:21.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:21.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.613][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:21.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:21.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:21.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:21.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:21.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:21.663][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:21.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:21.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:21.700][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:21.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:21.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:21.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:21.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:21.719][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:21.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:21.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.736][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:21.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:21.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:21.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:21.769][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:21.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:21.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:21.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:21.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.792][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:21.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:21.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:21.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:21.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:21.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:21.833][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:21.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:21.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:21.869][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:21.871][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:21.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:21.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:21.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:21.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:21.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:21.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.938][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:21.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:21.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:21.953][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:21.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:21.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:21.971][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:21.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:21.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.986][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:21.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:21.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:21.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:22.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:22.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:22.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:22.014][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:22.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:22.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:22.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:22.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.032][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:22.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:22.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:22.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:22.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:22.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:22.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:22.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:22.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.089][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:22.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:22.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:22.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:22.109][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:22.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:22.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:22.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:22.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:22.143][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:22.145][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:22.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:22.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:22.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:22.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:22.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:22.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:22.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:22.191][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:22.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:22.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:22.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:22.206][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:22.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:22.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:22.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:22.263][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:22.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:22.276][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:22.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:22.282][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:22.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:22.288][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.300][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:22.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:22.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:22.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:22.328][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:22.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:22.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:22.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:22.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:22.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:22.366][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:22.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:22.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:22.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:22.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:22.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:22.388][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:22.413][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:22.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:22.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:22.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:22.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:22.430][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:22.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:22.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.445][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:22.461][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:22.462][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:22.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:22.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:22.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:22.479][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:22.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:22.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.504][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:22.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:22.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:22.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:22.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:22.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:22.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:22.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:22.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:22.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:22.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 21:42:22.665][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:22.671][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:22.676][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-11-16 21:42:22.679][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-16 21:42:22.687][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:22.692][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:22.698][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-11-16 21:42:22.700][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:22.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:22.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:22.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:22.719][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:22.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:22.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:22.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:22.727][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-11-16 21:42:22.729][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:22.732][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:22.739][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-11-16 21:42:22.741][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:22.744][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:22.746][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:22.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:22.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:22.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:22.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:22.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:22.766][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:22.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:22.773][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:22.775][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:22.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.779][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:22.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:22.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.788][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:22.790][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:22.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.793][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.796][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:22.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:22.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.802][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:22.804][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:22.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.807][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.810][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:22.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:22.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.819][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:22.821][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:22.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.824][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.826][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:22.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:22.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.833][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:22.835][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:22.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.839][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.841][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:22.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:22.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.848][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:22.850][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:22.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.853][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.855][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:22.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:22.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.862][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:22.878][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.885][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.889][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:22.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:22.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.898][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:22.900][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:22.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.904][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:22.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:22.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.915][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:22.917][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:22.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.921][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.924][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:22.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:22.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.933][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:22.935][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:22.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.939][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.942][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:22.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:22.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.948][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:22.950][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:22.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.953][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.955][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:22.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:22.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:22.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:22.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:22.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:22.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:22.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:22.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:22.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:22.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:22.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:22.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:22.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:22.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:22.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:22.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:23.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:23.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:23.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:23.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:23.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:23.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:23.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:23.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:23.024][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-11-16 21:42:23.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:23.046][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:23.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:23.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:23.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:23.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:23.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:23.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:23.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:23.090][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:23.091][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:23.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:23.101][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:23.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:23.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:23.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:23.111][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-11-16 21:42:23.113][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:23.115][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:23.122][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-11-16 21:42:23.124][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:23.127][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:23.129][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:23.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:23.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:23.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:23.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:23.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:23.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:23.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:23.170][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:23.173][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:23.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.178][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:23.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:23.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.190][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:23.192][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:23.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.196][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.198][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:23.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:23.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.208][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:23.210][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:23.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.215][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.218][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:23.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:23.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.226][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:23.227][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:23.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.230][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.232][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:23.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:23.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.239][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:23.241][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:23.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.244][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.246][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:23.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:23.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.253][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:23.254][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:23.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.257][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.259][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:23.261][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:23.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.264][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.266][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:23.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:23.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.273][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.274][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.277][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.280][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.286][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:23.288][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:23.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.291][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.294][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:23.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:23.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.301][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:23.303][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:23.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.306][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.309][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:23.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:23.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.315][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:23.317][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:23.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.321][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.323][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:23.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:23.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.330][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:23.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:23.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:23.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:23.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:23.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:23.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:23.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:23.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:23.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:23.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:23.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:23.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:23.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:23.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:23.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:23.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:23.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:23.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:23.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:23.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:23.404][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-11-16 21:42:23.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 21:42:23.487][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:23.494][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:23.501][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-16 21:42:23.504][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:23.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:23.512][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:23.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:23.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:23.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:23.527][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:23.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:23.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.538][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:23.552][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:23.553][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:23.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:23.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:23.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:23.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:23.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:23.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:23.609][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:23.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:23.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:23.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:23.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:23.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:23.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:23.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.638][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.661][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:23.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:23.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:23.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:23.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:23.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:23.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:23.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:23.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.702][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:23.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:23.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:23.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:23.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:23.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:23.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:23.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:23.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:23.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:23.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:23.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:23.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:23.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:23.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:23.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:23.839][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:23.862][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:23.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:23.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:23.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:23.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:23.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:23.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:23.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:23.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:23.912][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:23.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:23.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:23.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:23.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:23.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:23.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:23.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:23.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:23.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:23.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:23.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:23.971][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:23.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:23.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:23.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:23.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:23.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.020][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.050][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.166][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.219][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.240][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.253][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.269][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.307][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.317][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.322][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.323][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.360][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.361][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.373][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.404][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.419][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.420][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.421][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.431][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 21:42:24.465][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:24.469][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:24.473][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-16 21:42:24.475][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:24.480][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.481][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.493][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.508][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.514][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.533][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.570][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.612][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.686][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.697][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.709][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.713][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.753][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.782][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.792][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.808][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.809][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.835][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.844][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.846][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.887][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.891][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.899][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.901][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.929][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.940][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.943][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.961][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.963][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:24.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:24.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:24.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:24.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:24.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:24.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:24.989][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:24.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:24.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:24.997][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:24.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:25.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:25.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:25.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:25.021][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:25.022][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:25.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:25.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:25.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:25.030][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:25.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:25.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:25.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:25.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:25.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:25.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:25.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:25.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:25.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:25.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:25.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:25.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:25.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:25.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:25.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:25.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:25.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:25.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.133][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-16 21:42:25.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-16 21:42:25.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-16 21:42:25.153][biodb::testThat]
biodb.INFO [2025-11-16 21:42:25.155][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-11-16 21:42:25.157][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:25.158][biodb::testThat]
biodb.TRACE[2025-11-16 21:42:25.163][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-16 21:42:25.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-16 21:42:25.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:25.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:25.192][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:25.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:25.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:25.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:25.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:25.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-16 21:42:25.205][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:25.208][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:25.210][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-16 21:42:25.212][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:25.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:25.216][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:25.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:25.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:25.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:25.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:25.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:25.229][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.233][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 21:42:25.243][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:25.246][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:25.249][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-16 21:42:25.250][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:25.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:25.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:25.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:25.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:25.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:25.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:25.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:25.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.276][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:25.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:25.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:25.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:25.289][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:25.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:25.291][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:25.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:25.294][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.299][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:25.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:25.308][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-16 21:42:25.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:25.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:25.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:25.329][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:25.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:25.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:25.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:25.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.346][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.347][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 21:42:25.348][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 21:42:25.350][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 21:42:25.351][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.353][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.354][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.357][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.358][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.360][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.362][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.363][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.364][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.365][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.366][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.368][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.369][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 21:42:25.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.394][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-16 21:42:25.396][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:25.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:25.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:25.407][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:25.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:25.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:25.414][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[2025-11-16 21:42:25.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.427][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.428][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 21:42:25.429][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 21:42:25.430][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 21:42:25.431][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.432][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.433][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.435][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.436][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.437][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.439][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.440][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.442][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.443][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.444][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.446][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.447][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 21:42:25.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.463][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-16 21:42:25.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:25.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:25.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:25.472][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:25.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:25.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:25.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:25.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.486][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.487][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 21:42:25.488][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 21:42:25.489][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 21:42:25.490][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.492][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.493][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.496][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.507][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.509][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.513][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.514][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.516][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.518][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.520][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.523][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.524][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 21:42:25.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.531][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.541][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-16 21:42:25.542][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-16 21:42:25.544][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-16 21:42:25.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:25.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:25.635][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:25.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:25.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:25.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:25.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:25.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-16 21:42:25.648][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:25.651][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:25.653][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-16 21:42:25.655][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-16 21:42:25.658][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:25.668][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:25.672][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-16 21:42:25.674][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:25.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:25.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:25.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:25.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:25.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:25.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:25.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:25.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:25.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:25.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:25.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:25.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:25.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:25.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:25.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:25.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:25.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:25.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:25.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:25.736][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:25.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:25.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:25.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:25.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:25.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:25.778][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-16 21:42:25.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:25.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:25.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:25.814][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:25.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:25.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:25.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:25.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.840][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.841][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 21:42:25.842][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 21:42:25.843][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 21:42:25.844][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.846][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.847][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.849][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.850][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.852][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.854][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.855][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.857][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.858][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.859][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.862][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.863][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 21:42:25.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.876][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-16 21:42:25.878][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:25.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:25.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:25.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:25.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:25.887][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:25.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:25.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.934][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.936][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 21:42:25.937][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 21:42:25.938][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 21:42:25.939][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.940][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.942][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.944][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.945][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.947][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.949][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.950][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.962][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:25.964][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.965][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.967][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.969][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 21:42:25.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:25.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:25.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:25.993][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-16 21:42:25.995][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:25.996][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:25.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:26.003][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:26.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:26.005][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:26.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:26.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.012][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.017][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.018][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 21:42:26.019][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 21:42:26.020][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 21:42:26.021][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.022][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.023][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.025][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.026][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.027][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.029][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.030][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.031][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.032][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.033][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.035][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.036][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 21:42:26.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.050][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-16 21:42:26.051][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-16 21:42:26.052][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-16 21:42:26.061][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-16 21:42:26.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-16 21:42:26.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-16 21:42:26.069][biodb::testThat]
biodb.INFO [2025-11-16 21:42:26.070][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-11-16 21:42:26.071][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:26.072][biodb::testThat]
biodb.TRACE[2025-11-16 21:42:26.075][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-16 21:42:26.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-16 21:42:26.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.088][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:26.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:26.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:26.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:26.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:26.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:26.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:26.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-16 21:42:26.112][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:26.115][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:26.117][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-16 21:42:26.118][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:26.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:26.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:26.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:26.128][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:26.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:26.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:26.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:26.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.143][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 21:42:26.155][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:26.157][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:26.160][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-16 21:42:26.161][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:26.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:26.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:26.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:26.171][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:26.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:26.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:26.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:26.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.184][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:26.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:26.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:26.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:26.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:26.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:26.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:26.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:26.199][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.203][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:26.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:26.212][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-16 21:42:26.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:26.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:26.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:26.221][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:26.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:26.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:26.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:26.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.233][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.234][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 21:42:26.235][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 21:42:26.236][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 21:42:26.237][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.238][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.239][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.241][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.242][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.243][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.245][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.246][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.248][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.249][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.250][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.252][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.253][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 21:42:26.254][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.267][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-16 21:42:26.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:26.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:26.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:26.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:26.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:26.277][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:26.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:26.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.283][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.287][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.288][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 21:42:26.289][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 21:42:26.290][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 21:42:26.291][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.292][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.293][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.302][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.304][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.305][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.308][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.309][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.310][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.311][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.312][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.314][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.315][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 21:42:26.316][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.328][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-16 21:42:26.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:26.330][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:26.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:26.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:26.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:26.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:26.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:26.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.348][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.349][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 21:42:26.350][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 21:42:26.351][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 21:42:26.352][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.353][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.354][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.356][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.357][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.358][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.360][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.361][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.362][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.363][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.364][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.366][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.367][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 21:42:26.368][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.380][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-16 21:42:26.381][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-16 21:42:26.382][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-16 21:42:26.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:26.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:26.410][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:26.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:26.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:26.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:26.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:26.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-16 21:42:26.421][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:26.424][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:26.426][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-16 21:42:26.427][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-16 21:42:26.430][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:26.433][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:26.435][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-16 21:42:26.436][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:26.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:26.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:26.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:26.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:26.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:26.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:26.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:26.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.466][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:26.472][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:26.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:26.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:26.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:26.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:26.487][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:26.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:26.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:26.517][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:26.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:26.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:26.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:26.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:26.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:26.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:26.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:26.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:26.561][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-16 21:42:26.563][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:26.564][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:26.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:26.569][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:26.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:26.571][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:26.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:26.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.578][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.582][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.583][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 21:42:26.583][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 21:42:26.585][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 21:42:26.586][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.587][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.588][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.590][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.591][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.592][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.593][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.594][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.595][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.597][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.598][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.600][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.601][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 21:42:26.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.617][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-16 21:42:26.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:26.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:26.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:26.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:26.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:26.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:26.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:26.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.650][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.651][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 21:42:26.653][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 21:42:26.655][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 21:42:26.656][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.657][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.659][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.662][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.677][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.680][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.685][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.688][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.691][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.694][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.697][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.702][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.704][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 21:42:26.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.742][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-16 21:42:26.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:26.748][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:26.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:26.763][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:26.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:26.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:26.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:26.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.798][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.805][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 21:42:26.807][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 21:42:26.813][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 21:42:26.819][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.823][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.829][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.842][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.849][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.857][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.868][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.875][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.888][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:26.896][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.903][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.914][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.917][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 21:42:26.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:26.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:26.956][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-16 21:42:26.958][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-16 21:42:26.960][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-16 21:42:26.985][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-16 21:42:26.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-16 21:42:26.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:26.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-16 21:42:27.005][biodb::testThat]
biodb.INFO [2025-11-16 21:42:27.008][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-11-16 21:42:27.011][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:27.013][biodb::testThat]
biodb.TRACE[2025-11-16 21:42:27.022][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-16 21:42:27.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-16 21:42:27.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.032][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:27.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:27.071][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:27.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:27.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:27.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:27.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:27.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-16 21:42:27.092][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:27.097][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:27.100][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-16 21:42:27.102][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:27.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:27.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:27.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:27.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:27.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:27.131][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:27.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:27.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 21:42:27.151][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:27.154][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:27.156][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-16 21:42:27.157][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:27.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:27.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:27.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:27.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:27.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:27.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:27.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:27.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:27.182][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:27.183][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:27.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:27.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:27.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:27.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:27.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:27.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:27.205][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-16 21:42:27.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:27.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:27.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:27.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:27.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:27.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:27.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:27.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.225][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.226][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 21:42:27.227][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 21:42:27.228][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 21:42:27.229][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.230][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.231][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.233][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.234][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.235][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.237][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.238][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.239][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.240][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.241][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.243][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.244][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 21:42:27.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.257][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-16 21:42:27.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:27.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:27.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:27.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:27.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:27.267][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:27.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:27.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.283][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.284][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 21:42:27.285][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 21:42:27.286][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 21:42:27.287][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.288][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.289][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.291][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.292][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.293][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.295][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.296][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.297][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.298][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.300][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.301][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.303][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 21:42:27.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.316][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-16 21:42:27.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:27.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:27.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:27.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:27.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:27.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:27.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:27.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.336][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.337][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 21:42:27.338][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 21:42:27.339][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 21:42:27.340][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.341][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.342][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.344][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.345][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.346][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.348][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.349][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.350][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.351][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.352][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.354][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.355][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 21:42:27.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.368][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-16 21:42:27.369][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-16 21:42:27.369][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-16 21:42:27.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:27.408][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:27.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:27.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:27.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:27.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:27.422][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:27.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-16 21:42:27.426][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:27.428][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:27.430][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-16 21:42:27.431][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-16 21:42:27.434][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:27.437][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:27.439][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-16 21:42:27.440][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:27.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:27.444][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:27.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:27.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:27.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:27.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:27.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:27.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:27.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:27.467][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:27.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:27.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:27.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:27.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:27.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:27.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:27.490][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:27.491][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:27.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:27.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:27.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:27.498][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:27.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:27.501][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:27.513][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-16 21:42:27.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:27.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:27.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:27.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:27.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:27.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:27.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:27.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.533][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.534][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 21:42:27.535][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 21:42:27.536][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 21:42:27.537][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.538][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.542][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.543][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.544][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.546][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.547][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.548][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.549][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.550][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.552][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.553][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 21:42:27.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.575][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-16 21:42:27.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:27.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:27.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:27.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:27.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:27.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:27.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:27.588][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.596][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.597][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 21:42:27.598][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 21:42:27.599][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 21:42:27.600][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.601][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.602][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.604][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.605][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.606][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.608][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.609][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.610][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.611][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.612][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.614][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.615][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 21:42:27.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.628][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-16 21:42:27.630][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:27.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:27.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:27.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:27.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:27.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:27.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:27.640][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.648][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.649][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 21:42:27.650][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 21:42:27.651][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 21:42:27.652][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.653][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.654][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.656][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.657][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.658][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.660][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.661][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.662][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 21:42:27.663][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.664][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.666][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.667][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 21:42:27.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.680][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-16 21:42:27.681][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-16 21:42:27.682][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-16 21:42:27.702][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-16 21:42:27.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-16 21:42:27.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-16 21:42:27.710][biodb::testThat]
biodb.INFO [2025-11-16 21:42:27.711][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-11-16 21:42:27.712][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:27.713][biodb::testThat]
biodb.DEBUG[2025-11-16 21:42:27.715][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-11-16 21:42:27.722][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:27.724][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:27.727][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-11-16 21:42:27.728][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:27.729][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:27.731][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:27.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:27.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:27.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:27.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:27.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:27.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:27.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:27.744][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:27.746][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:27.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.748][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:27.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:27.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.753][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:27.754][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:27.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.756][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.758][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:27.759][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:27.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.761][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.762][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:27.764][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:27.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.765][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.767][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:27.768][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:27.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.770][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.771][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:27.772][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:27.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.774][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.775][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:27.776][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:27.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.778][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.780][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.781][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:27.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.783][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.784][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:27.785][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:27.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.787][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.789][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:27.790][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:27.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.792][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.793][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:27.794][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:27.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.796][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:27.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:27.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:27.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:27.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:27.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:27.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:27.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:27.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:27.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:27.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:27.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:27.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:27.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:27.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:27.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:27.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:27.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:27.838][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-11-16 21:42:27.839][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-11-16 21:42:27.847][biodb::testThat]
biodb.INFO [2025-11-16 21:42:27.849][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-11-16 21:42:27.850][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:27.851][biodb::testThat]
biodb.DEBUG[2025-11-16 21:42:27.860][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-11-16 21:42:27.862][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-11-16 21:42:27.863][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-11-16 21:42:27.864][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:27.867][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-11-16 21:42:28.121][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-11-16 21:42:28.127][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-11-16 21:42:28.128][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:28.130][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-11-16 21:42:28.131][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:28.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:28.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:28.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:28.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:28.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:28.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:28.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:28.145][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.146][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.148][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.153][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:28.154][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:28.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.156][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.158][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:28.159][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:28.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.160][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.162][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:28.163][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:28.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.165][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.166][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:28.167][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:28.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.169][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.170][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:28.171][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:28.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.173][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.175][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:28.176][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:28.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.178][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.179][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:28.180][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:28.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.182][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.183][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:28.184][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:28.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.186][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.187][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:28.188][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:28.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.190][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.191][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:28.192][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:28.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.194][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:28.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:28.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:28.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:28.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:28.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:28.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:28.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:28.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:28.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:28.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:28.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:28.233][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:28.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:28.236][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.238][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.239][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.245][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:28.246][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:28.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.248][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.250][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:28.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:28.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.254][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:28.255][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:28.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.257][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.258][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:28.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:28.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.262][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:28.264][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:28.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.265][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.267][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:28.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:28.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.271][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:28.272][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:28.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.274][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.276][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:28.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:28.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.280][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:28.281][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:28.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.284][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.285][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:28.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:28.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.290][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:28.291][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:28.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.293][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.295][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:28.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:28.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.300][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:28.302][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:28.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.304][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:28.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:28.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.312][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:28.313][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:28.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.315][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.318][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:28.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:28.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.323][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:28.325][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:28.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.328][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.329][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:28.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:28.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.335][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:28.336][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:28.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.338][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.340][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:28.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:28.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:28.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:28.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:28.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:28.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:28.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:28.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:28.376][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:28.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:28.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:28.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:28.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:28.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:28.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:28.390][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.391][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.393][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.399][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:28.400][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:28.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.402][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.404][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:28.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:28.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.408][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:28.409][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:28.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.412][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.413][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:28.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:28.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.418][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:28.419][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:28.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.421][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.422][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:28.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:28.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.427][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:28.428][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:28.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.430][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.432][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:28.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:28.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.436][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:28.437][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:28.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.440][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.441][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:28.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:28.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.446][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:28.447][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:28.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.449][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.451][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:28.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:28.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.455][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:28.456][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:28.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.458][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:28.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:28.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.465][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:28.473][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:28.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.475][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.477][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:28.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:28.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.481][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:28.482][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:28.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.484][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.486][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:28.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:28.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.490][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:28.491][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:28.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.493][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.494][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:28.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:28.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:28.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:28.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:28.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:28.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:28.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:28.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:28.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:28.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:28.561][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-11-16 21:42:28.562][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-11-16 21:42:28.564][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-11-16 21:42:28.586][biodb::testThat]
biodb.INFO [2025-11-16 21:42:28.588][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-11-16 21:42:28.590][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:28.592][biodb::testThat]
biodb.INFO [2025-11-16 21:42:28.635][biodb::testThat]
biodb.INFO [2025-11-16 21:42:28.637][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-11-16 21:42:28.639][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:28.641][biodb::testThat]
biodb.INFO [2025-11-16 21:42:28.656][biodb::testThat]
biodb.INFO [2025-11-16 21:42:28.658][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-11-16 21:42:28.660][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:28.662][biodb::testThat]
sched.DEBUG[2025-11-16 21:42:28.667][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:28.671][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:28.692][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-11-16 21:42:28.700][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-11-16 21:42:28.753][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:28.760][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:28.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.768][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:28.774][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:28.777][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:28.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:28.786][ef$get] fields variable is a list.
biodb.INFO [2025-11-16 21:42:28.795][biodb::testThat]
biodb.INFO [2025-11-16 21:42:28.801][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-11-16 21:42:28.814][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:28.821][biodb::testThat]
biodb.ERROR[2025-11-16 21:42:28.868][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-11-16 21:42:28.903][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-11-16 21:42:28.928][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-16 21:42:28.931][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-16 21:42:28.933][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-16 21:42:28.934][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:28.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:28.937][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:28.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:28.940][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:28.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-16 21:42:28.963][biodb::testContext]
biodb.INFO [2025-11-16 21:42:28.965][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-16 21:42:28.971][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-11-16 21:42:28.977][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-16 21:42:28.979][biodb::testContext]
biodb.INFO [2025-11-16 21:42:28.987][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-11-16 21:42:28.993][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-11-16 21:42:29.001][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 21:42:29.003][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-16 21:42:29.004][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-16 21:42:29.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.009][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-16 21:42:29.011][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-16 21:42:29.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.017][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-16 21:42:29.019][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-16 21:42:29.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.025][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-16 21:42:29.027][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-16 21:42:29.029][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-16 21:42:29.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.035][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-16 21:42:29.039][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-16 21:42:29.040][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-16 21:42:29.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.045][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[2025-11-16 21:42:29.046][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-16 21:42:29.048][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-16 21:42:29.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.054][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-16 21:42:29.056][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-16 21:42:29.058][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-16 21:42:29.059][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.064][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-16 21:42:29.065][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-16 21:42:29.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.071][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-16 21:42:29.073][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-16 21:42:29.075][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-16 21:42:29.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.082][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-16 21:42:29.083][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-16 21:42:29.085][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-16 21:42:29.087][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-16 21:42:29.089][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-16 21:42:29.090][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-16 21:42:29.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.097][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-16 21:42:29.115][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-16 21:42:29.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.121][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-16 21:42:29.123][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-16 21:42:29.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.129][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-16 21:42:29.131][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-16 21:42:29.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.135][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-16 21:42:29.136][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-16 21:42:29.137][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-16 21:42:29.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.141][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-16 21:42:29.142][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-16 21:42:29.146][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-16 21:42:29.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.150][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-16 21:42:29.151][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-16 21:42:29.152][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-16 21:42:29.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.156][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-16 21:42:29.158][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:29.159][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-11-16 21:42:29.160][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.161][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:42:29.162][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.163][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:42:29.164][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:29.165][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 21:42:29.166][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-16 21:42:29.167][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:42:29.168][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.169][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-16 21:42:29.170][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:42:29.171][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:29.172][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.173][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 21:42:29.173][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 21:42:29.173][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 21:42:29.173][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-16 21:42:29.173][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-16 21:42:29.174][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 21:42:29.175][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:29.176][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:29.177][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:42:29.178][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:29.178][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:29.179][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:42:29.180][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:29.181][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:42:29.182][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:42:29.183][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:29.184][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:29.185][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-16 21:42:29.187][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:29.188][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-16 21:42:29.189][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.190][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:42:29.191][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.192][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:42:29.193][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:29.194][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 21:42:29.195][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-16 21:42:29.196][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:42:29.197][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.198][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-16 21:42:29.199][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:42:29.200][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:29.201][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.201][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 21:42:29.201][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 21:42:29.201][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 21:42:29.201][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-16 21:42:29.201][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-16 21:42:29.202][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 21:42:29.203][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:29.204][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:29.205][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:42:29.206][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:29.207][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:29.208][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:42:29.209][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:29.210][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:42:29.211][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:42:29.212][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:29.212][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:29.214][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-16 21:42:29.215][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.216][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-11-16 21:42:29.217][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.218][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:42:29.219][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.220][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:42:29.221][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:29.222][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 21:42:29.223][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-16 21:42:29.224][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:42:29.225][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:29.226][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-16 21:42:29.227][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:42:29.228][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:29.229][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.230][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:29.231][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 21:42:29.232][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:29.233][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:29.234][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:42:29.234][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:29.235][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:29.236][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:42:29.237][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:29.238][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:42:29.239][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:42:29.240][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:29.241][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:29.242][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-16 21:42:29.244][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.245][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-16 21:42:29.246][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.247][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:42:29.248][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.249][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:42:29.250][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:29.251][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 21:42:29.252][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-16 21:42:29.253][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:42:29.254][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:29.255][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-16 21:42:29.256][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:42:29.257][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:29.258][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.259][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:29.260][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 21:42:29.261][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:29.262][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:29.263][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:42:29.264][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:29.265][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:29.266][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:42:29.267][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:29.268][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:42:29.269][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:42:29.270][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:29.271][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:29.272][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 21:42:29.273][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.287][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[2025-11-16 21:42:29.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.300][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[2025-11-16 21:42:29.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.317][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[2025-11-16 21:42:29.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.325][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[2025-11-16 21:42:29.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.344][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-16 21:42:29.345][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-16 21:42:29.347][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-16 21:42:29.348][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-16 21:42:29.349][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-16 21:42:29.351][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-16 21:42:29.352][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-16 21:42:29.353][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-16 21:42:29.355][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-16 21:42:29.356][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-16 21:42:29.358][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-16 21:42:29.359][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-16 21:42:29.360][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-16 21:42:29.362][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-16 21:42:29.363][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-16 21:42:29.364][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-16 21:42:29.366][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-16 21:42:29.367][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-16 21:42:29.368][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-16 21:42:29.370][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-16 21:42:29.371][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-16 21:42:29.372][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-16 21:42:29.374][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-16 21:42:29.375][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-16 21:42:29.376][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-16 21:42:29.378][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-16 21:42:29.379][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-16 21:42:29.380][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-16 21:42:29.382][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-16 21:42:29.383][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-16 21:42:29.384][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-16 21:42:29.386][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-16 21:42:29.387][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-16 21:42:29.389][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-16 21:42:29.390][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-16 21:42:29.391][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-16 21:42:29.393][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-16 21:42:29.394][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-16 21:42:29.395][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-16 21:42:29.397][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-16 21:42:29.398][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-16 21:42:29.399][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-16 21:42:29.401][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-16 21:42:29.402][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-16 21:42:29.403][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-16 21:42:29.405][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-16 21:42:29.406][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-16 21:42:29.407][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-16 21:42:29.409][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-16 21:42:29.416][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-16 21:42:29.417][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-16 21:42:29.418][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-16 21:42:29.420][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-16 21:42:29.421][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-16 21:42:29.422][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-16 21:42:29.423][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-16 21:42:29.425][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-16 21:42:29.426][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-16 21:42:29.427][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-16 21:42:29.429][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-16 21:42:29.430][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-16 21:42:29.431][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-16 21:42:29.433][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-16 21:42:29.434][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-16 21:42:29.435][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-16 21:42:29.437][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-16 21:42:29.438][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-16 21:42:29.439][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-16 21:42:29.441][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-16 21:42:29.442][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-16 21:42:29.443][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-16 21:42:29.444][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-16 21:42:29.446][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-16 21:42:29.447][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-16 21:42:29.448][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-16 21:42:29.450][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-16 21:42:29.451][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-16 21:42:29.452][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-16 21:42:29.453][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-16 21:42:29.455][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-16 21:42:29.456][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-16 21:42:29.457][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-16 21:42:29.459][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-16 21:42:29.460][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-16 21:42:29.461][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-11-16 21:42:29.462][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 21:42:29.463][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.465][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.489][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.DEBUG[2025-11-16 21:42:29.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.556][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[2025-11-16 21:42:29.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.564][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-16 21:42:29.566][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-16 21:42:29.568][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:29.569][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-16 21:42:29.570][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.571][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:42:29.572][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.573][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:42:29.574][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.575][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-16 21:42:29.576][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-16 21:42:29.577][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:42:29.578][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.578][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-16 21:42:29.579][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:42:29.580][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-16 21:42:29.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-16 21:42:29.580][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-16 21:42:29.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-16 21:42:29.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-16 21:42:29.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-16 21:42:29.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-16 21:42:29.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-16 21:42:29.580][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-16 21:42:29.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-16 21:42:29.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-16 21:42:29.581][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:29.582][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 21:42:29.582][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 21:42:29.582][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 21:42:29.583][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-16 21:42:29.584][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:29.585][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:29.586][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:42:29.587][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:29.588][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:29.589][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:42:29.590][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-16 21:42:29.590][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-16 21:42:29.591][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:42:29.592][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:42:29.593][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.594][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-16 21:42:29.594][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-16 21:42:29.595][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-16 21:42:29.597][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-16 21:42:29.598][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-16 21:42:29.599][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-16 21:42:29.601][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-16 21:42:29.602][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-16 21:42:29.606][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-16 21:42:29.609][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-16 21:42:29.610][biodb::testThat]
biodb.INFO [2025-11-16 21:42:29.611][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-11-16 21:42:29.612][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:29.613][biodb::testThat]
sched.DEBUG[2025-11-16 21:42:29.616][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-16 21:42:29.618][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:29.624][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-16 21:42:29.625][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-16 21:42:29.628][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 [2025-11-16 21:42:29.631][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:29.633][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-16 21:42:29.634][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:29.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:29.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.645][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[2025-11-16 21:42:29.647][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 [2025-11-16 21:42:29.649][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:29.651][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-16 21:42:29.652][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:29.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:29.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.682][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:29.683][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.684][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-16 21:42:29.697][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 [2025-11-16 21:42:29.699][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:29.701][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-16 21:42:29.702][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:29.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:29.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.719][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-16 21:42:29.724][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 [2025-11-16 21:42:29.727][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:29.729][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-16 21:42:29.730][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:29.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:29.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:29.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.751][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".
sched.DEBUG[2025-11-16 21:42:29.754][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 [2025-11-16 21:42:29.757][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:29.759][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-16 21:42:29.760][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:29.761][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:29.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.770][FUN] Functions in observer 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[2025-11-16 21:42:29.772][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 [2025-11-16 21:42:29.775][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:29.776][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-16 21:42:29.777][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:29.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:29.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-16 21:42:29.790][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 [2025-11-16 21:42:29.792][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:29.794][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-11-16 21:42:29.795][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:29.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:29.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-16 21:42:29.812][biodb::testThat]
biodb.INFO [2025-11-16 21:42:29.813][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-11-16 21:42:29.814][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:29.815][biodb::testThat]
sched.DEBUG[2025-11-16 21:42:29.818][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 [2025-11-16 21:42:29.821][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:29.823][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-11-16 21:42:29.824][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:29.826][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:29.827][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.832][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.835][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".
sched.DEBUG[2025-11-16 21:42:29.839][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 [2025-11-16 21:42:29.841][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:29.844][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-11-16 21:42:29.845][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:29.847][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:29.848][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.855][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-16 21:42:29.861][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-16 21:42:29.862][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-16 21:42:29.863][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-16 21:42:29.864][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:29.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:29.866][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:29.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:29.868][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.869][FUN] Functions in observer BiodbConfig: [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 [2025-11-16 21:42:29.873][biodb::testContext]
biodb.INFO [2025-11-16 21:42:29.874][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-16 21:42:29.875][biodb::testContext] Test context - Test web services
biodb.INFO [2025-11-16 21:42:29.876][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-16 21:42:29.877][biodb::testContext]
biodb.INFO [2025-11-16 21:42:29.879][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-11-16 21:42:29.881][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-11-16 21:42:29.884][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 21:42:29.885][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-16 21:42:29.886][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-16 21:42:29.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.890][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-16 21:42:29.891][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-16 21:42:29.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.895][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-16 21:42:29.896][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-16 21:42:29.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.899][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-16 21:42:29.900][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-16 21:42:29.901][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-16 21:42:29.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.905][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-16 21:42:29.906][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-16 21:42:29.907][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-16 21:42:29.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.910][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-16 21:42:29.911][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-16 21:42:29.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.915][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-16 21:42:29.916][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-16 21:42:29.917][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-16 21:42:29.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.921][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-16 21:42:29.922][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-16 21:42:29.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.925][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-16 21:42:29.926][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-16 21:42:29.927][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-16 21:42:29.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.931][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-16 21:42:29.932][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-16 21:42:29.933][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-16 21:42:29.934][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-16 21:42:29.935][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-16 21:42:29.936][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-16 21:42:29.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.939][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-16 21:42:29.940][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-16 21:42:29.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.944][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-16 21:42:29.945][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-16 21:42:29.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.948][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-16 21:42:29.949][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-16 21:42:29.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.953][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-16 21:42:29.954][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-16 21:42:29.955][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-16 21:42:29.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.958][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-16 21:42:29.959][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-16 21:42:29.964][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-16 21:42:29.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.967][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-16 21:42:29.968][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-16 21:42:29.969][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-16 21:42:29.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:29.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:29.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:29.973][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-16 21:42:29.975][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:29.976][self$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[2025-11-16 21:42:29.977][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.978][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:42:29.979][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.979][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:42:29.980][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:29.981][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 21:42:29.982][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-16 21:42:29.983][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:42:29.984][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.985][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-16 21:42:29.986][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:42:29.987][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:29.988][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:29.989][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 21:42:29.989][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 21:42:29.989][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 21:42:29.989][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-16 21:42:29.989][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-16 21:42:29.990][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 21:42:29.991][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:29.992][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:29.993][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:42:29.994][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:29.995][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:29.995][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:42:29.996][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:29.997][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:42:29.998][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:42:29.999][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.000][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.001][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-16 21:42:30.003][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.004][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-16 21:42:30.005][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.006][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:42:30.007][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.008][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.009][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.009][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.010][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-16 21:42:30.011][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:42:30.012][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.013][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-16 21:42:30.014][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:42:30.015][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.016][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.017][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 21:42:30.017][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 21:42:30.017][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 21:42:30.017][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-16 21:42:30.017][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-16 21:42:30.018][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 21:42:30.019][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:30.020][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:30.021][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:42:30.022][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:30.023][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:30.023][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.024][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.031][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:42:30.032][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:42:30.033][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.034][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.035][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-16 21:42:30.037][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.038][self$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[2025-11-16 21:42:30.039][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.040][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:42:30.041][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.042][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.043][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.044][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.045][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-16 21:42:30.046][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:42:30.047][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.048][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-16 21:42:30.049][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:42:30.050][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.051][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.052][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.053][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 21:42:30.054][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:30.055][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:30.056][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:42:30.056][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:30.057][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:30.058][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.059][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.060][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:42:30.061][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:42:30.062][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.063][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.064][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-16 21:42:30.066][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.067][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-16 21:42:30.068][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.069][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:42:30.070][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.071][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.072][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.073][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.074][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-16 21:42:30.075][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:42:30.076][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.077][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-16 21:42:30.078][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:42:30.079][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.080][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.081][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.082][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 21:42:30.082][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:30.083][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:30.084][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:42:30.085][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:30.086][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:30.087][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.088][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.089][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:42:30.090][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:42:30.091][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.092][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.093][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 21:42:30.094][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.099][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[2025-11-16 21:42:30.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.117][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[2025-11-16 21:42:30.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.122][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[2025-11-16 21:42:30.124][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.136][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.DEBUG[2025-11-16 21:42:30.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.144][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.202][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-16 21:42:30.204][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-16 21:42:30.207][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-16 21:42:30.210][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-16 21:42:30.212][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-16 21:42:30.215][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-16 21:42:30.218][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-16 21:42:30.220][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-16 21:42:30.223][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-16 21:42:30.225][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-16 21:42:30.228][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-16 21:42:30.230][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-16 21:42:30.233][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-16 21:42:30.234][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-16 21:42:30.237][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-16 21:42:30.239][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-16 21:42:30.241][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-16 21:42:30.243][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-16 21:42:30.245][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-16 21:42:30.247][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-16 21:42:30.248][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-16 21:42:30.250][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-16 21:42:30.252][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-16 21:42:30.254][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-16 21:42:30.256][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-16 21:42:30.258][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-16 21:42:30.260][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-16 21:42:30.262][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-16 21:42:30.265][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-16 21:42:30.267][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-16 21:42:30.269][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-16 21:42:30.272][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-16 21:42:30.274][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-16 21:42:30.277][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-16 21:42:30.279][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-16 21:42:30.281][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-16 21:42:30.284][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-16 21:42:30.286][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-16 21:42:30.288][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-16 21:42:30.291][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-16 21:42:30.294][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-16 21:42:30.297][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-16 21:42:30.298][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-16 21:42:30.301][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-16 21:42:30.303][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-16 21:42:30.305][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-16 21:42:30.307][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-16 21:42:30.309][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-16 21:42:30.312][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-16 21:42:30.313][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-16 21:42:30.315][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-16 21:42:30.317][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-16 21:42:30.319][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-16 21:42:30.321][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-16 21:42:30.323][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-16 21:42:30.324][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-16 21:42:30.326][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-16 21:42:30.328][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-16 21:42:30.330][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-16 21:42:30.332][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-16 21:42:30.334][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-16 21:42:30.336][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-16 21:42:30.338][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-16 21:42:30.341][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-16 21:42:30.343][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-16 21:42:30.345][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-16 21:42:30.347][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-16 21:42:30.349][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-16 21:42:30.351][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-16 21:42:30.353][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-16 21:42:30.356][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-16 21:42:30.358][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-16 21:42:30.361][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-16 21:42:30.363][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-16 21:42:30.365][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-16 21:42:30.368][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-16 21:42:30.370][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-16 21:42:30.373][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-16 21:42:30.376][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-16 21:42:30.379][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-16 21:42:30.382][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-16 21:42:30.386][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-16 21:42:30.389][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-16 21:42:30.393][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-16 21:42:30.396][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-11-16 21:42:30.398][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 21:42:30.400][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.404][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.407][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[2025-11-16 21:42:30.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:30.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:30.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:30.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:30.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:30.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:30.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:30.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:30.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.452][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[2025-11-16 21:42:30.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:30.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:30.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:30.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:30.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:30.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:30.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:30.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:30.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:30.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:30.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:30.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:30.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:30.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:30.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:30.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:30.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:30.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:30.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:30.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:30.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:30.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:30.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.590][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[2025-11-16 21:42:30.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:30.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:30.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.603][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-16 21:42:30.606][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-16 21:42:30.609][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.611][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.613][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.615][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:42:30.617][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.618][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.620][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.622][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-16 21:42:30.623][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-16 21:42:30.625][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:42:30.627][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.628][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-16 21:42:30.630][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:42:30.632][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-16 21:42:30.632][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-16 21:42:30.632][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-16 21:42:30.632][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-16 21:42:30.632][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-16 21:42:30.632][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-16 21:42:30.632][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-16 21:42:30.632][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-16 21:42:30.632][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-16 21:42:30.632][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-16 21:42:30.632][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-16 21:42:30.634][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.635][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 21:42:30.635][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 21:42:30.635][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 21:42:30.637][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-16 21:42:30.639][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:30.640][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:30.642][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:42:30.643][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:30.644][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:30.645][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.646][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-16 21:42:30.646][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-16 21:42:30.647][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:42:30.648][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:42:30.649][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.650][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-16 21:42:30.650][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-16 21:42:30.651][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-16 21:42:30.653][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-16 21:42:30.655][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-16 21:42:30.656][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-16 21:42:30.658][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-16 21:42:30.659][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-16 21:42:30.663][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-16 21:42:30.666][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-16 21:42:30.668][biodb::testThat]
biodb.INFO [2025-11-16 21:42:30.669][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-11-16 21:42:30.670][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:30.671][biodb::testThat]
sched.DEBUG[2025-11-16 21:42:30.674][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-16 21:42:30.676][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:30.682][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-16 21:42:30.683][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-16 21:42:30.687][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-11-16 21:42:30.690][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:30.692][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-11-16 21:42:30.694][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-11-16 21:42:30.701][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-16 21:42:30.703][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-16 21:42:30.704][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-16 21:42:30.705][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:30.705][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:30.706][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.708][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-16 21:42:30.713][biodb::testContext]
biodb.INFO [2025-11-16 21:42:30.714][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-16 21:42:30.715][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-11-16 21:42:30.716][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-16 21:42:30.716][biodb::testContext]
biodb.INFO [2025-11-16 21:42:30.718][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-11-16 21:42:30.720][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-11-16 21:42:30.724][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 21:42:30.725][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-16 21:42:30.726][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-16 21:42:30.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.730][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-16 21:42:30.731][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-16 21:42:30.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.734][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-16 21:42:30.735][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-16 21:42:30.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.739][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-16 21:42:30.740][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-16 21:42:30.741][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-16 21:42:30.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.745][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-16 21:42:30.746][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-16 21:42:30.747][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-16 21:42:30.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.750][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-16 21:42:30.751][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-16 21:42:30.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.754][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-16 21:42:30.755][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-16 21:42:30.756][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-16 21:42:30.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.760][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-16 21:42:30.761][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-16 21:42:30.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.764][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-16 21:42:30.765][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-16 21:42:30.766][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-16 21:42:30.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.769][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[2025-11-16 21:42:30.770][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-16 21:42:30.771][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-16 21:42:30.772][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-16 21:42:30.773][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-16 21:42:30.774][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-16 21:42:30.775][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-16 21:42:30.776][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.778][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-16 21:42:30.779][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-16 21:42:30.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.783][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-16 21:42:30.784][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-16 21:42:30.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.787][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-16 21:42:30.788][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-16 21:42:30.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.792][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-16 21:42:30.793][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-16 21:42:30.794][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-16 21:42:30.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.797][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-16 21:42:30.798][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-16 21:42:30.801][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-16 21:42:30.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.804][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[2025-11-16 21:42:30.805][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-16 21:42:30.806][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-16 21:42:30.807][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-16 21:42:30.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.810][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-16 21:42:30.812][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.813][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-11-16 21:42:30.814][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.815][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:42:30.816][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.817][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.818][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.819][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.820][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-16 21:42:30.821][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:42:30.822][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.823][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-16 21:42:30.824][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:42:30.825][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.826][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.827][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 21:42:30.827][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 21:42:30.827][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 21:42:30.827][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-16 21:42:30.827][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-16 21:42:30.828][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 21:42:30.829][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:30.830][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:30.831][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:42:30.832][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:30.833][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:30.834][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.835][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.836][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:42:30.836][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:42:30.837][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.838][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.840][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-16 21:42:30.842][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.843][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-16 21:42:30.844][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.845][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:42:30.846][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.846][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.853][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.854][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.855][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-16 21:42:30.856][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:42:30.857][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.858][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-16 21:42:30.859][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:42:30.860][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.861][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.862][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 21:42:30.862][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 21:42:30.862][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 21:42:30.862][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-16 21:42:30.862][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-16 21:42:30.863][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 21:42:30.863][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:30.864][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:30.865][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:42:30.866][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:30.867][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:30.868][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.869][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.870][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:42:30.871][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:42:30.872][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.872][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.874][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-16 21:42:30.875][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.876][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-11-16 21:42:30.877][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.878][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:42:30.879][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.880][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.881][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.882][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.883][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-16 21:42:30.884][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:42:30.885][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.886][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-16 21:42:30.887][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:42:30.888][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.889][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.890][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.891][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 21:42:30.892][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:30.893][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:30.894][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:42:30.895][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:30.896][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:30.897][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.898][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.899][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:42:30.900][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:42:30.901][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.902][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.903][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-16 21:42:30.905][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.906][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-16 21:42:30.907][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.908][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:42:30.909][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.910][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.911][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.912][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.913][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-16 21:42:30.914][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:42:30.915][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.916][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-16 21:42:30.917][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:42:30.918][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.919][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:30.919][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.920][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 21:42:30.921][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:30.922][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:30.923][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:42:30.924][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:30.925][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:30.926][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:42:30.927][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.928][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:42:30.929][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:42:30.930][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:30.931][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 21:42:30.932][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 21:42:30.933][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.943][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.DEBUG[2025-11-16 21:42:30.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.989][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.DEBUG[2025-11-16 21:42:30.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:30.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:30.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:30.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:30.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:30.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:31.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:31.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:31.008][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-16 21:42:31.009][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-16 21:42:31.011][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-16 21:42:31.012][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-16 21:42:31.013][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-16 21:42:31.015][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-16 21:42:31.016][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-16 21:42:31.018][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-16 21:42:31.019][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-16 21:42:31.020][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-16 21:42:31.022][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-16 21:42:31.023][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-16 21:42:31.024][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-16 21:42:31.026][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-16 21:42:31.027][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-16 21:42:31.029][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-16 21:42:31.030][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-16 21:42:31.031][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-16 21:42:31.033][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-16 21:42:31.034][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-16 21:42:31.035][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-16 21:42:31.037][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-16 21:42:31.038][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-16 21:42:31.039][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-16 21:42:31.041][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-16 21:42:31.042][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-16 21:42:31.043][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-16 21:42:31.045][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-16 21:42:31.046][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-16 21:42:31.047][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-16 21:42:31.049][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-16 21:42:31.050][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-16 21:42:31.051][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-16 21:42:31.053][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-16 21:42:31.054][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-16 21:42:31.055][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-16 21:42:31.057][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-16 21:42:31.058][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-16 21:42:31.059][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-16 21:42:31.061][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-16 21:42:31.062][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-16 21:42:31.063][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-16 21:42:31.065][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-16 21:42:31.066][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-16 21:42:31.068][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-16 21:42:31.069][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-16 21:42:31.070][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-16 21:42:31.072][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-16 21:42:31.073][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-16 21:42:31.074][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-16 21:42:31.076][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-16 21:42:31.077][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-16 21:42:31.078][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-16 21:42:31.079][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-16 21:42:31.081][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-16 21:42:31.082][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-16 21:42:31.083][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-16 21:42:31.085][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-16 21:42:31.086][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-16 21:42:31.087][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-16 21:42:31.089][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-16 21:42:31.090][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-16 21:42:31.091][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-16 21:42:31.093][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-16 21:42:31.094][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-16 21:42:31.095][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-16 21:42:31.097][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-16 21:42:31.098][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-16 21:42:31.099][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-16 21:42:31.101][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-16 21:42:31.102][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-16 21:42:31.103][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-16 21:42:31.105][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-16 21:42:31.106][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-16 21:42:31.107][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-16 21:42:31.109][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-16 21:42:31.110][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-16 21:42:31.111][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-16 21:42:31.113][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-16 21:42:31.114][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-16 21:42:31.115][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-16 21:42:31.117][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-16 21:42:31.118][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-16 21:42:31.119][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-16 21:42:31.121][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-11-16 21:42:31.122][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 21:42:31.123][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.124][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.125][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[2025-11-16 21:42:31.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:31.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:31.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:31.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:31.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:31.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:31.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:31.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:31.144][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:31.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:31.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:31.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:31.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:31.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:31.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:31.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.155][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[2025-11-16 21:42:31.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:31.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:31.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:31.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:31.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:31.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:31.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:31.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:31.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:31.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:31.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:31.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:31.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:31.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:31.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:31.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:31.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:31.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:31.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:31.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:31.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:31.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:31.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:31.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:31.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:31.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:31.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:31.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:31.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:31.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:31.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:31.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:31.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:31.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:31.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:31.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:31.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:31.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:31.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:31.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:31.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:31.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:31.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:31.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:31.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 21:42:31.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:31.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:31.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 21:42:31.226][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-16 21:42:31.227][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-16 21:42:31.229][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:31.230][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-16 21:42:31.231][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:31.232][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 21:42:31.233][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:31.234][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 21:42:31.234][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:31.235][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-16 21:42:31.236][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-16 21:42:31.237][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 21:42:31.238][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:31.239][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-16 21:42:31.240][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 21:42:31.241][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-16 21:42:31.241][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-16 21:42:31.241][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-16 21:42:31.241][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-16 21:42:31.241][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-16 21:42:31.241][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-16 21:42:31.241][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-16 21:42:31.241][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-16 21:42:31.241][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-16 21:42:31.241][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-16 21:42:31.241][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-16 21:42:31.242][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-16 21:42:31.243][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 21:42:31.243][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 21:42:31.243][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 21:42:31.244][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-16 21:42:31.245][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:31.246][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:31.247][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 21:42:31.248][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 21:42:31.249][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 21:42:31.250][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 21:42:31.251][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-16 21:42:31.251][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-16 21:42:31.252][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 21:42:31.253][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 21:42:31.254][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-16 21:42:31.255][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-16 21:42:31.255][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-16 21:42:31.256][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-16 21:42:31.258][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-16 21:42:31.259][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-16 21:42:31.261][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-16 21:42:31.262][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-16 21:42:31.264][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-16 21:42:31.267][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-16 21:42:31.270][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-16 21:42:31.271][biodb::testThat]
biodb.INFO [2025-11-16 21:42:31.272][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-11-16 21:42:31.273][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 21:42:31.274][biodb::testThat]
sched.DEBUG[2025-11-16 21:42:31.277][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-16 21:42:31.279][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:31.284][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-16 21:42:31.285][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-16 21:42:31.289][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 [2025-11-16 21:42:31.291][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-16 21:42:31.293][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-11-16 21:42:31.294][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 21:42:31.298][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-11-16 21:42:31.301][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 21:42:31.303][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 21:42:31.311][FUN] Found encoding UTF-8 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-11-16 21:42:31.313][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 21:42:31.315][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 21:42:31.316][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 21:42:31.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 21:42:31.319][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:31.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:31.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 21:42:31.331][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:31.332][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:31.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.334][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:31.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:31.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.339][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:31.340][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:31.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.342][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.344][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 21:42:31.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 21:42:31.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.348][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:31.349][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:31.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.351][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.353][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 21:42:31.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 21:42:31.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.357][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 21:42:31.358][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 21:42:31.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.360][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.361][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 21:42:31.362][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 21:42:31.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.364][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.366][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:31.367][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:31.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.369][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.371][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:31.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 21:42:31.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.375][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:31.376][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:31.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.378][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.379][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 21:42:31.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 21:42:31.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.383][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:31.384][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:31.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.386][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:31.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 21:42:31.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.392][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:31.393][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:31.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.395][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.397][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 21:42:31.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 21:42:31.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.401][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:31.402][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:31.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.404][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.405][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 21:42:31.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 21:42:31.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.409][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:31.410][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:31.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.412][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.413][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 21:42:31.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 21:42:31.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:31.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:31.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:31.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:31.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:31.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:31.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 21:42:31.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 21:42:31.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:31.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:31.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:31.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:31.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:31.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:31.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:31.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:31.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:31.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:31.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 21:42:31.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 21:42:31.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 21:42:31.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 21:42:31.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 21:42:31.462][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-11-16 21:42:31.466][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-16 21:42:31.467][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-16 21:42:31.468][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-16 21:42:31.468][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 21:42:31.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 21:42:31.470][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 21:42:31.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 21:42:31.472][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 21:42:31.473][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".
[ FAIL 0 | WARN 0 | SKIP 1 | PASS 357 ]

══ Skipped tests (1) ═══════════════════════════════════════════════════════════
• empty test (1):

[ FAIL 0 | WARN 0 | SKIP 1 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
 31.400   1.131  39.821

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.5350.0600.596
ChebiEntry0.2860.0050.365