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This page was generated on 2025-10-11 12:03 -0400 (Sat, 11 Oct 2025).

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

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


CHECK results for biodbChebi on nebbiolo2

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

raw results


Summary

Package: biodbChebi
Version: 1.15.1
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings biodbChebi_1.15.1.tar.gz
StartedAt: 2025-10-10 21:43:51 -0400 (Fri, 10 Oct 2025)
EndedAt: 2025-10-10 21:45:27 -0400 (Fri, 10 Oct 2025)
EllapsedTime: 96.2 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

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


* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck’
* using R version 4.5.1 Patched (2025-08-23 r88802)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.15.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

biodbChebi.Rcheck/00install.out

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


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

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


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

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-10-10 21:44:53.990][biodb::testContext]
biodb.INFO [2025-10-10 21:44:53.993][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-10 21:44:53.994][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-10-10 21:44:53.995][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-10 21:44:53.996][biodb::testContext]
biodb.INFO [2025-10-10 21:44:54.004][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-10 21:44:54.007][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-10 21:44:54.015][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-10 21:44:54.017][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-10 21:44:54.018][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-10 21:44:54.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.022][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-10 21:44:54.045][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-10 21:44:54.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.048][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[2025-10-10 21:44:54.049][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-10 21:44:54.051][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-10 21:44:54.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.067][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-10 21:44:54.068][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-10 21:44:54.069][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-10 21:44:54.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.073][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-10 21:44:54.074][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-10 21:44:54.075][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-10 21:44:54.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.079][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-10 21:44:54.081][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-10 21:44:54.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.085][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-10 21:44:54.086][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-10 21:44:54.087][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-10 21:44:54.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.091][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-10 21:44:54.092][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-10 21:44:54.093][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.095][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[2025-10-10 21:44:54.096][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-10 21:44:54.098][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-10 21:44:54.099][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-10 21:44:54.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.103][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-10 21:44:54.104][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-10 21:44:54.105][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-10 21:44:54.106][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-10 21:44:54.107][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-10 21:44:54.109][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-10 21:44:54.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.113][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-10 21:44:54.114][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-10 21:44:54.115][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.118][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-10 21:44:54.119][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-10 21:44:54.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.123][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-10 21:44:54.125][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-10 21:44:54.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.129][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-10 21:44:54.130][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-10 21:44:54.131][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-10 21:44:54.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.135][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-10 21:44:54.136][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-10 21:44:54.143][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-10 21:44:54.144][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.150][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-10 21:44:54.155][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-10 21:44:54.156][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-10 21:44:54.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.168][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-10 21:44:54.229][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:44:54.248][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-10 21:44:54.250][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.251][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:44:54.252][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.254][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:44:54.255][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-10 21:44:54.256][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-10 21:44:54.257][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-10 21:44:54.258][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:44:54.259][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.260][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-10 21:44:54.262][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:44:54.263][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-10 21:44:54.264][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.265][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-10 21:44:54.265][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-10 21:44:54.265][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-10 21:44:54.265][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-10 21:44:54.265][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-10 21:44:54.266][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-10 21:44:54.267][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:44:54.268][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:44:54.270][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:44:54.271][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:44:54.272][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:44:54.273][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:44:54.274][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-10 21:44:54.275][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:44:54.276][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:44:54.277][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-10 21:44:54.278][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-10 21:44:54.280][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-10 21:44:54.282][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:44:54.283][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-10 21:44:54.284][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.285][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:44:54.286][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.287][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:44:54.289][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-10 21:44:54.290][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-10 21:44:54.291][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-10 21:44:54.292][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:44:54.293][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.294][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-10 21:44:54.295][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:44:54.297][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-10 21:44:54.298][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.299][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-10 21:44:54.299][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-10 21:44:54.299][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-10 21:44:54.299][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-10 21:44:54.299][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-10 21:44:54.300][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-10 21:44:54.301][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:44:54.302][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:44:54.303][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:44:54.304][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:44:54.305][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:44:54.306][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:44:54.308][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-10 21:44:54.309][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:44:54.310][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:44:54.311][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-10 21:44:54.312][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-10 21:44:54.313][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-10 21:44:54.315][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.316][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-10 21:44:54.318][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.319][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:44:54.320][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.321][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:44:54.322][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-10 21:44:54.323][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-10 21:44:54.324][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-10 21:44:54.325][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:44:54.327][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:44:54.328][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-10 21:44:54.329][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:44:54.330][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-10 21:44:54.331][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.332][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-10 21:44:54.333][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-10 21:44:54.335][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:44:54.336][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:44:54.337][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:44:54.338][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:44:54.339][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:44:54.340][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:44:54.341][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-10 21:44:54.342][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:44:54.343][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:44:54.344][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-10 21:44:54.346][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-10 21:44:54.347][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-10 21:44:54.349][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.359][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-10 21:44:54.360][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.361][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:44:54.363][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.364][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:44:54.365][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-10 21:44:54.366][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-10 21:44:54.367][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-10 21:44:54.368][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:44:54.369][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:44:54.371][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-10 21:44:54.372][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:44:54.373][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-10 21:44:54.374][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.375][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-10 21:44:54.376][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-10 21:44:54.377][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:44:54.378][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:44:54.379][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:44:54.381][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:44:54.382][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:44:54.383][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:44:54.384][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-10 21:44:54.385][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:44:54.386][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:44:54.387][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-10 21:44:54.388][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-10 21:44:54.393][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-10 21:44:54.394][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.405][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.DEBUG[2025-10-10 21:44:54.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.466][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[2025-10-10 21:44:54.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.477][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-10 21:44:54.483][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-10 21:44:54.484][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-10 21:44:54.486][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-10 21:44:54.487][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-10 21:44:54.489][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-10 21:44:54.491][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-10 21:44:54.492][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-10 21:44:54.494][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-10 21:44:54.495][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-10 21:44:54.497][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-10 21:44:54.499][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-10 21:44:54.500][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-10 21:44:54.502][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-10 21:44:54.503][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-10 21:44:54.505][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-10 21:44:54.506][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-10 21:44:54.508][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-10 21:44:54.510][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-10 21:44:54.511][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-10 21:44:54.513][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-10 21:44:54.514][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-10 21:44:54.516][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-10 21:44:54.518][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-10 21:44:54.519][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-10 21:44:54.521][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-10 21:44:54.522][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-10 21:44:54.524][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-10 21:44:54.525][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-10 21:44:54.527][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-10 21:44:54.529][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-10 21:44:54.530][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-10 21:44:54.532][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-10 21:44:54.533][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-10 21:44:54.535][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-10 21:44:54.537][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-10 21:44:54.538][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-10 21:44:54.540][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-10 21:44:54.541][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-10 21:44:54.543][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-10 21:44:54.545][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-10 21:44:54.546][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-10 21:44:54.548][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-10 21:44:54.550][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-10 21:44:54.551][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-10 21:44:54.553][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-10 21:44:54.555][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-10 21:44:54.556][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-10 21:44:54.558][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-10 21:44:54.559][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-10 21:44:54.561][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-10 21:44:54.563][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-10 21:44:54.564][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-10 21:44:54.566][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-10 21:44:54.567][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-10 21:44:54.569][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-10 21:44:54.571][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-10 21:44:54.572][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-10 21:44:54.574][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-10 21:44:54.575][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-10 21:44:54.577][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-10 21:44:54.579][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-10 21:44:54.580][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-10 21:44:54.582][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-10 21:44:54.583][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-10 21:44:54.585][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-10 21:44:54.586][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-10 21:44:54.588][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-10 21:44:54.590][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-10 21:44:54.591][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-10 21:44:54.593][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-10 21:44:54.594][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-10 21:44:54.596][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-10 21:44:54.597][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-10 21:44:54.599][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-10 21:44:54.601][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-10 21:44:54.602][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-10 21:44:54.604][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-10 21:44:54.605][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-10 21:44:54.613][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-10 21:44:54.615][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-10 21:44:54.617][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-10 21:44:54.618][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-10 21:44:54.625][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-10 21:44:54.627][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-10 21:44:54.631][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-10 21:44:54.632][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.634][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.635][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.DEBUG[2025-10-10 21:44:54.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:54.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:54.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:54.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:54.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:54.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:54.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:54.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:54.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:54.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:54.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:54.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:54.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:54.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:54.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:54.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:54.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:54.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:54.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:54.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:54.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:54.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:54.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:54.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:54.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:54.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:54.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:54.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:54.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.739][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.DEBUG[2025-10-10 21:44:54.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:54.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:54.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:44:54.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:54.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:54.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:54.755][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-10 21:44:54.769][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-10 21:44:54.771][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:44:54.773][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-10 21:44:54.774][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.775][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:44:54.777][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.778][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:44:54.779][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.780][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-10 21:44:54.782][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-10 21:44:54.783][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:44:54.785][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.786][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-10 21:44:54.787][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:44:54.789][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-10 21:44:54.789][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-10 21:44:54.789][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-10 21:44:54.789][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-10 21:44:54.789][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-10 21:44:54.789][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-10 21:44:54.789][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-10 21:44:54.789][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-10 21:44:54.789][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-10 21:44:54.789][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-10 21:44:54.789][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-10 21:44:54.791][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-10 21:44:54.792][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-10 21:44:54.792][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-10 21:44:54.792][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-10 21:44:54.794][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-10 21:44:54.795][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:44:54.796][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:44:54.798][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:44:54.799][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:44:54.801][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:44:54.802][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:44:54.803][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-10 21:44:54.803][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-10 21:44:54.805][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:44:54.806][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:44:54.808][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-10 21:44:54.809][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-10 21:44:54.809][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-10 21:44:54.819][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-10 21:44:54.822][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-10 21:44:54.824][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-10 21:44:54.826][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-10 21:44:54.829][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-10 21:44:54.831][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-10 21:44:54.868][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-10 21:44:54.893][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-10 21:44:54.907][biodb::testThat]
biodb.INFO [2025-10-10 21:44:54.919][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-10-10 21:44:54.920][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:44:54.922][biodb::testThat]
biodb.TRACE[2025-10-10 21:44:54.928][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-10-10 21:44:54.931][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:44:54.941][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:44:54.956][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:44:54.957][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:54.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:54.977][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:54.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:54.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:54.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:44:54.995][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:54.997][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:54.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:54.999][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.022][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:44:55.023][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:44:55.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.025][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.057][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:44:55.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:44:55.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.062][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:44:55.064][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:44:55.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.066][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.067][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:44:55.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:44:55.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.072][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:55.073][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:55.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.075][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.077][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:55.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:55.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.082][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:55.083][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:55.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.085][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.086][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:55.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:55.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.091][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:55.092][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:55.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.094][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.096][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:55.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:55.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.101][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:44:55.102][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:55.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.104][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.106][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:44:55.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:55.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.111][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:55.112][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:55.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.114][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:55.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:55.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.120][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:55.122][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:55.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.124][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.126][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:55.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:55.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.130][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:44:55.131][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:44:55.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.134][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.135][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:44:55.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:44:55.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.140][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:44:55.141][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:44:55.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.143][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.145][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:44:55.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:44:55.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:44:55.246][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-10-10 21:44:55.249][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:55.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:55.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.254][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:55.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:55.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.286][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:55.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:55.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:55.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:55.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:55.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:55.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.301][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:55.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:55.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.306][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-10 21:44:55.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-10 21:44:55.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.310][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-10 21:44:55.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-10 21:44:55.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.315][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-10 21:44:55.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-10 21:44:55.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.319][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-10 21:44:55.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-10 21:44:55.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.449][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.451][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.453][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:55.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:55.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.480][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.492][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.493][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.496][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:55.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.516][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:55.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:55.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.523][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:55.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:55.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.529][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:55.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:55.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.536][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:55.537][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:55.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.540][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.542][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:55.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:55.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.560][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:44:55.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:44:55.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.567][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:44:55.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:44:55.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.573][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:44:55.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:44:55.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.579][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:44:55.581][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:44:55.583][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.584][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.586][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:44:55.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:44:55.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:55.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:55.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:55.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:55.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:55.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:55.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.626][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:55.627][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:55.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.630][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:55.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:55.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:55.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:55.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:55.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:55.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:55.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:55.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.671][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:55.672][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:55.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.675][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:55.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:55.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.747][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:44:55.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:44:55.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.755][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:44:55.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:44:55.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.761][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:44:55.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:44:55.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.767][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:44:55.768][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:44:55.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.771][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.773][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:44:55.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:44:55.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.791][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-10 21:44:55.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:44:55.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.797][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-10 21:44:55.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:44:55.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.804][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-10 21:44:55.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:44:55.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.810][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-10 21:44:55.811][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:44:55.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.814][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.816][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-10 21:44:55.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:44:55.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.833][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:55.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:55.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.840][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:55.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:55.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.846][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:55.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:55.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.852][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:55.854][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:55.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.857][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.858][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:55.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:55.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.876][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:44:55.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:44:55.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.882][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:44:55.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:44:55.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.888][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:44:55.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:44:55.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.894][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:44:55.896][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:44:55.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.899][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.900][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:44:55.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:44:55.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.917][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:55.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:55.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.924][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:55.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:55.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.931][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:55.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:55.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.937][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:55.939][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:55.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.941][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.943][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:55.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:55.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.965][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:55.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:55.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:55.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:55.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.980][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:55.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:55.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.987][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:55.988][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:55.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.991][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:55.993][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:55.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:55.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:55.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.010][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:56.012][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:56.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.015][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.023][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:44:56.025][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:44:56.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.028][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.043][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:44:56.045][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:44:56.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.048][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.055][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:56.057][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:56.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.059][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.066][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:56.068][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:56.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.071][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.078][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:56.080][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:56.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.083][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.090][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:56.091][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:56.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.094][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.101][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:56.103][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:56.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.106][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.113][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-10 21:44:56.115][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:44:56.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.118][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.125][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:56.127][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:56.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.130][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.137][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:44:56.138][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:44:56.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.141][ef$get] fields variable is a list.
biodb.INFO [2025-10-10 21:44:56.153][biodb::testThat]
biodb.INFO [2025-10-10 21:44:56.155][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-10-10 21:44:56.156][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:44:56.157][biodb::testThat]
biodb.DEBUG[2025-10-10 21:44:56.180][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-10-10 21:44:56.184][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:44:56.189][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:44:56.199][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-10-10 21:44:56.202][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:44:56.241][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:44:56.243][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:44:56.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:44:56.247][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:56.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:56.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:56.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:56.258][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:56.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:44:56.263][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:56.265][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:56.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.268][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:56.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:56.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.305][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:44:56.307][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:44:56.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.310][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.312][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:44:56.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:44:56.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.318][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:44:56.320][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:44:56.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.331][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.333][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:44:56.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:44:56.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.339][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:56.341][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:56.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.344][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.346][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:56.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:56.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.352][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:56.353][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:56.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.356][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.358][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:56.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:56.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.364][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:56.366][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:56.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.369][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.371][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:56.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:56.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.377][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:44:56.379][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:56.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.382][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.384][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:44:56.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:56.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.390][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:56.392][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:56.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.395][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:56.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:56.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.404][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:56.405][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:56.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.408][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.411][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:56.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:56.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.417][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:44:56.418][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:44:56.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.421][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.423][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:44:56.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:44:56.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.429][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:44:56.431][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:44:56.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.434][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.436][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:44:56.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:44:56.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:56.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:56.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:56.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:56.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:56.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:56.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:56.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:56.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:56.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:56.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:56.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:56.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:56.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:56.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:56.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:56.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:56.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:56.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:56.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:56.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:44:56.501][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-10-10 21:44:56.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-10-10 21:44:56.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-10-10 21:44:56.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-10-10 21:44:56.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-10-10 21:44:56.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-10-10 21:44:56.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-10-10 21:44:56.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-10 21:44:56.531][biodb::testThat]
biodb.INFO [2025-10-10 21:44:56.533][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-10-10 21:44:56.534][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:44:56.536][biodb::testThat]
biodb.TRACE[2025-10-10 21:44:56.540][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:56.542][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:56.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.545][ef$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:44:56.547][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-10-10 21:44:56.588][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:56.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:56.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.595][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:56.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:56.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.601][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:56.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:56.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:44:56.617][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-10-10 21:44:56.626][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-10 21:44:56.659][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:44:56.669][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-10 21:44:56.671][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-10 21:44:56.703][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:44:56.755][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:44:56.768][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-10 21:44:56.770][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:44:56.774][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-10-10 21:44:56.800][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:56.801][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:56.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.804][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.805][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:56.806][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:56.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.808][ef$get] fields variable is a list.
biodb.INFO [2025-10-10 21:44:56.813][biodb::testThat]
biodb.INFO [2025-10-10 21:44:56.814][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-10-10 21:44:56.815][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:44:56.816][biodb::testThat]
biodb.TRACE[2025-10-10 21:44:56.845][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:56.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:56.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.850][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:56.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:56.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.855][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:56.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:56.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-10 21:44:56.930][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:44:56.933][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:44:56.937][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-10 21:44:56.938][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-10 21:44:56.956][biodb::testThat]
biodb.INFO [2025-10-10 21:44:56.957][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-10-10 21:44:56.958][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:44:56.959][biodb::testThat]
biodb.TRACE[2025-10-10 21:44:56.982][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:56.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:56.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.987][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:56.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:56.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.992][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:56.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:56.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:56.996][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:56.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:56.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:56.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:57.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:57.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:57.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:57.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:57.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:57.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:57.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:57.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:57.010][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-10 21:44:57.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-10 21:44:57.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:57.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:57.014][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-10 21:44:57.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-10 21:44:57.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:57.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:57.019][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-10 21:44:57.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-10 21:44:57.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:57.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:57.023][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-10 21:44:57.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-10 21:44:57.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:57.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:57.049][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:57.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:57.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:57.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:57.054][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:57.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:57.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:57.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:57.059][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:57.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:57.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:57.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:57.064][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:57.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:57.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:57.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:57.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:57.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:57.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:57.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:57.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:57.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:57.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:57.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:57.085][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-10 21:44:57.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-10 21:44:57.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:57.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:57.089][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-10 21:44:57.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-10 21:44:57.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:57.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:57.094][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-10 21:44:57.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-10 21:44:57.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:57.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:57.098][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-10 21:44:57.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-10 21:44:57.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:57.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-10 21:44:57.109][biodb::testThat]
biodb.INFO [2025-10-10 21:44:57.110][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-10-10 21:44:57.111][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:44:57.113][biodb::testThat]
biodb.INFO [2025-10-10 21:44:57.122][biodb::testThat]
biodb.INFO [2025-10-10 21:44:57.123][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-10-10 21:44:57.124][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:44:57.125][biodb::testThat]
biodb.INFO [2025-10-10 21:44:57.134][biodb::testThat]
biodb.INFO [2025-10-10 21:44:57.135][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-10-10 21:44:57.136][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:44:57.137][biodb::testThat]
biodb.DEBUG[2025-10-10 21:44:57.141][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-10-10 21:44:57.821][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-10-10 21:44:58.204][biodb::testThat]
biodb.INFO [2025-10-10 21:44:58.206][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-10-10 21:44:58.207][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:44:58.209][biodb::testThat]
biodb.TRACE[2025-10-10 21:44:58.217][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:58.219][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:58.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.222][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.223][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:58.225][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:58.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.228][ef$get] fields variable is a list.
biodb.INFO [2025-10-10 21:44:58.230][biodb::testThat]
biodb.INFO [2025-10-10 21:44:58.232][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-10-10 21:44:58.233][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:44:58.234][biodb::testThat]
biodb.TRACE[2025-10-10 21:44:58.250][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:58.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:58.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.256][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:58.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:58.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.262][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:58.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:58.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-10 21:44:58.434][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:44:58.438][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:44:58.443][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-10 21:44:58.444][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-10 21:44:58.576][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:44:58.580][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:44:58.586][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-10 21:44:58.587][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-10 21:44:58.608][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-10 21:44:58.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-10 21:44:58.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:58.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:58.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:58.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:58.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:58.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:58.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.647][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:58.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:58.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.653][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:58.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:58.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-10 21:44:58.669][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:44:58.673][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:44:58.680][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-10 21:44:58.682][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:44:58.686][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:44:58.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:58.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:58.696][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:58.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:58.699][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:58.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:58.702][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-10-10 21:44:58.781][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:44:58.784][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:44:58.796][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-10-10 21:44:58.798][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:44:58.804][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:44:58.806][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:44:58.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:44:58.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:58.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:58.832][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:58.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:58.839][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:58.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:44:58.852][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:58.854][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:58.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.860][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:58.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:58.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.879][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:44:58.881][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:44:58.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.884][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.885][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:44:58.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:44:58.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.892][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:44:58.894][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:44:58.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.896][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.899][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:44:58.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:44:58.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.905][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:58.907][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:58.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.910][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.912][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:58.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:58.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.918][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:58.920][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:58.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.922][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.924][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:58.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:58.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.930][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:58.940][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:58.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.943][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.945][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:44:58.946][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:58.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.949][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.951][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:44:58.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:58.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.957][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:58.959][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:58.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.962][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:58.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:58.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.970][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:58.971][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:58.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.974][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.976][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:58.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:58.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.982][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:44:58.984][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:44:58.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.987][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.989][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:44:58.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:44:58.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:58.995][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:44:58.996][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:44:58.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:58.999][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.001][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:44:59.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:44:59.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:44:59.057][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-10-10 21:44:59.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-10 21:44:59.084][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:44:59.087][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:44:59.093][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-10 21:44:59.094][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:44:59.129][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:44:59.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:59.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:59.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:59.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:59.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:59.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:44:59.148][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.160][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:44:59.166][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:44:59.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:59.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:59.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:59.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:59.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:59.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:59.188][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-10-10 21:44:59.190][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:44:59.192][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:44:59.197][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-10-10 21:44:59.198][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:44:59.200][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:44:59.202][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:44:59.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:44:59.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:59.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:59.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:59.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:59.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:59.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:44:59.223][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.224][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.227][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.235][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:44:59.237][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:44:59.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.240][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.242][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:44:59.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:44:59.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.248][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:44:59.249][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:44:59.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.252][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.254][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:44:59.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:44:59.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.260][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:59.262][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:59.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.265][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.266][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:59.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:59.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.273][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:59.274][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:59.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.277][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.279][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:59.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:59.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.285][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:59.287][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:59.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.289][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.291][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:44:59.293][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.296][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.298][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:44:59.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.304][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:59.305][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:59.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.308][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:59.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:59.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.316][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:59.318][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:59.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.321][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.323][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:59.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:59.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.329][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:44:59.331][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:44:59.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.333][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.335][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:44:59.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:44:59.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.341][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:44:59.343][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:44:59.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.346][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.348][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:44:59.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:44:59.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:44:59.414][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-10-10 21:44:59.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-10 21:44:59.467][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:44:59.471][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:44:59.478][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-10 21:44:59.479][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:44:59.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:44:59.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:59.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:59.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:59.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:59.497][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:59.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:44:59.500][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:44:59.518][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:44:59.519][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:59.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:59.528][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:59.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:59.530][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:59.532][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[2025-10-10 21:44:59.534][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-10-10 21:44:59.535][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:44:59.537][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:44:59.545][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-10-10 21:44:59.547][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:44:59.549][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:44:59.551][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:44:59.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:44:59.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:59.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:59.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:59.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:59.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:59.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:44:59.572][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.574][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.577][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.585][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:44:59.586][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:44:59.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.589][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.591][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:44:59.593][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:44:59.594][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.595][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.598][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:59.599][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:59.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.602][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.604][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:59.606][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:59.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.608][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.610][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:59.612][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:59.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.615][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.616][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:44:59.618][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.621][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.623][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:59.624][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:59.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.627][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.629][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:59.630][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:59.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.633][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.635][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:59.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:59.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.641][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:44:59.643][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:44:59.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.646][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.648][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:44:59.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:44:59.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.654][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:44:59.655][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:44:59.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.658][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.697][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:44:59.727][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-10-10 21:44:59.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:44:59.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:44:59.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:59.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:59.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:59.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:59.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:59.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:44:59.776][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-10-10 21:44:59.777][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:44:59.780][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:44:59.786][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-10-10 21:44:59.787][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:44:59.789][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:44:59.791][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:44:59.794][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:44:59.795][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:44:59.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:44:59.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:44:59.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:44:59.806][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:44:59.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:44:59.811][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.813][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.816][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.824][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:44:59.825][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:44:59.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.828][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.830][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:44:59.832][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:44:59.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.834][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.837][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:44:59.838][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:44:59.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.841][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.843][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:44:59.844][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:44:59.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.847][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.849][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:59.851][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:44:59.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.853][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.855][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:44:59.857][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:44:59.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.860][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.869][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:59.870][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:44:59.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.877][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.878][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:59.889][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:59.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.892][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.902][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:44:59.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:44:59.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.909][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:44:59.910][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:44:59.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.913][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.914][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:44:59.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:44:59.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.925][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:44:59.926][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:44:59.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.928][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:44:59.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:44:59.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:44:59.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:44:59.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:44:59.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:00.009][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-10-10 21:45:00.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:00.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:00.068][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:00.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:00.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:00.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:00.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:00.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:00.090][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-10-10 21:45:00.091][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:00.093][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:00.098][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-10-10 21:45:00.099][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:00.100][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:00.102][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:00.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:00.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:00.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:00.122][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:00.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:00.128][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:00.129][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.TRACE[2025-10-10 21:45:00.132][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.133][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.136][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.146][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:00.147][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:00.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.155][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.156][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:00.160][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:00.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.162][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.163][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:00.165][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:00.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.171][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.172][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:00.173][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:00.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.175][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.179][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:00.180][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:00.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.185][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.187][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:00.188][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.196][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.198][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:00.199][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:00.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.201][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.204][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:00.209][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:00.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.211][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.213][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:00.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:00.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.223][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:00.225][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:00.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.229][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.231][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:00.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:00.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.235][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:00.240][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:00.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.243][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:00.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:00.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:00.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:00.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:00.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:00.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:00.316][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-10-10 21:45:00.317][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.335][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:00.340][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:00.341][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:00.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:00.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:00.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:00.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:00.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:00.352][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-10-10 21:45:00.353][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:00.354][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:00.364][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-10-10 21:45:00.366][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:00.367][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:00.368][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:00.370][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:00.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:00.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:00.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:00.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:00.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:00.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:00.384][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.385][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.388][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.394][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:00.395][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:00.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.397][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.399][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:00.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:00.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.404][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:00.405][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:00.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.407][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.409][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:00.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:00.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.414][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:00.415][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:00.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.417][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.419][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:00.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:00.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.423][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:00.424][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:00.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.431][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.432][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:00.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:00.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.441][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:00.442][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:00.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.448][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.450][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:00.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:00.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.460][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:00.461][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.463][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.465][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:00.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.474][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:00.477][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:00.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.479][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:00.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:00.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.491][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:00.500][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:00.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.502][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.504][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:00.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:00.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.509][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:00.511][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:00.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.513][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.514][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:00.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:00.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.519][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:00.520][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:00.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.522][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.524][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:00.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:00.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:00.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:00.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:00.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:00.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.542][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:00.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:00.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:00.588][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-10-10 21:45:00.590][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:00.625][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:00.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:00.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:00.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:00.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:00.637][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:00.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:00.644][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-10-10 21:45:00.649][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:00.651][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:00.662][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-10-10 21:45:00.664][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:00.665][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:00.666][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:00.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:00.669][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:00.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:00.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:00.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:00.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:00.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:00.710][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.711][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.716][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.723][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:00.724][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:00.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.725][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.727][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:00.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:00.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.732][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:00.733][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:00.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.735][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.737][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:00.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:00.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.741][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:00.743][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:00.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.745][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.746][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:00.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:00.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.751][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:00.752][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:00.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.754][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.756][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:00.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:00.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.761][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:00.762][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:00.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.764][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.766][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:00.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:00.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.770][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:00.772][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.774][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.775][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:00.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.780][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:00.781][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:00.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.783][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:00.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:00.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.790][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:00.791][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:00.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.793][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.795][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:00.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:00.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.799][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:00.801][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:00.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.803][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.804][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:00.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:00.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.809][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:00.810][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:00.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.812][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.814][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:00.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:00.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:00.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:00.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:00.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:00.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:00.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:00.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:00.873][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-10-10 21:45:00.874][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:00.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:00.889][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:00.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:00.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:00.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:00.898][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:00.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:00.900][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-10-10 21:45:00.901][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:00.903][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:00.912][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-10-10 21:45:00.916][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:00.917][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:00.919][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:00.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:00.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:00.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:00.929][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:00.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:00.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:00.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:00.935][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.936][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.939][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:00.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:00.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.945][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:00.946][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:00.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.948][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.950][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:00.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:00.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.955][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:00.956][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:00.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.958][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.960][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:00.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:00.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.964][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:00.966][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:00.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.968][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.969][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:00.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:00.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.974][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:00.975][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:00.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.978][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.979][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:00.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:00.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.984][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:00.985][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:00.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.987][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.989][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:00.990][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.992][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.994][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:00.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:00.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:00.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:00.999][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:01.000][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:01.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.002][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:01.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:01.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.008][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:01.010][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:01.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.012][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.013][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:01.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:01.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.018][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:01.019][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:01.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.029][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.030][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:01.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:01.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.035][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:01.036][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:01.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.038][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.040][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:01.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:01.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:01.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:01.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:01.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:01.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:01.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:01.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:01.090][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-10-10 21:45:01.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:01.105][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:01.106][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:01.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:01.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:01.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:01.116][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:01.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:01.126][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-10-10 21:45:01.127][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:01.133][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:01.139][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-10-10 21:45:01.140][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:01.143][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:01.144][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:01.150][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:01.151][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:01.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:01.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:01.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:01.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:01.169][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[2025-10-10 21:45:01.176][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.182][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.188][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.202][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:01.204][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:01.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.213][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.219][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:01.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:01.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.230][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:01.236][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:01.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.242][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.244][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:01.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:01.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.249][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:01.250][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:01.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.253][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.255][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:01.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:01.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.269][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:01.271][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:01.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.278][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.280][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:01.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:01.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.293][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:01.296][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:01.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.299][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.301][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:01.302][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.305][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.306][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:01.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.311][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:01.312][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:01.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.315][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.316][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:01.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:01.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.326][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:01.328][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:01.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.330][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.331][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:01.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:01.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.336][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:01.337][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:01.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.339][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.341][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:01.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:01.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.345][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:01.346][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:01.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.349][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.350][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:01.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:01.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:01.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:01.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:01.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:01.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:01.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:01.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:01.438][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-10-10 21:45:01.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:01.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:01.454][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:01.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:01.468][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:01.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:01.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:01.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:01.477][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-10-10 21:45:01.478][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:01.479][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:01.489][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-10-10 21:45:01.491][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:01.496][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:01.497][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:01.499][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:01.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:01.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:01.513][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:01.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:01.515][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:01.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:01.523][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.524][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.526][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.540][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:01.546][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:01.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.548][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.550][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:01.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:01.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.554][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:01.556][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:01.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.558][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.559][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:01.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:01.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.564][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:01.565][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:01.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.567][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.569][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:01.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:01.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.573][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:01.574][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:01.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.577][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.578][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:01.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:01.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.583][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:01.584][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:01.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.586][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.587][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:01.589][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.597][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.598][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:01.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.603][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:01.604][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:01.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.606][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:01.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:01.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.612][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:01.613][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:01.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.616][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.617][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:01.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:01.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.628][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:01.629][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:01.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.635][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.636][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:01.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:01.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.643][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:01.644][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:01.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.650][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.651][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:01.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:01.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:01.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:01.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:01.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:01.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:01.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:01.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:01.741][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-10-10 21:45:01.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.751][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.755][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:01.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:01.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:01.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:01.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:01.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:01.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:01.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:01.770][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-10-10 21:45:01.771][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:01.773][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:01.777][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-10-10 21:45:01.778][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:01.780][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:01.781][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:01.783][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:01.784][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:01.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:01.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:01.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:01.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:01.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:01.797][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.798][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.800][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:01.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:01.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.807][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:01.808][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:01.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.819][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.826][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:01.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:01.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.844][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:01.850][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:01.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.860][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.866][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:01.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:01.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.875][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:01.884][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:01.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.893][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.894][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:01.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:01.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.901][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:01.906][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:01.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.917][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.926][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:01.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:01.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.938][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:01.946][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:01.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.948][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.953][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:01.954][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.956][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.957][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:01.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:01.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.962][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:01.963][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:01.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.965][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:01.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:01.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.971][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:01.972][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:01.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.974][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.975][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:01.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:01.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.980][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:01.981][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:01.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.983][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.984][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:01.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:01.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.989][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:01.990][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:01.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.992][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.994][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:01.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:01.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:01.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:01.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:01.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:02.042][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-10-10 21:45:02.043][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.048][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:02.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:02.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:02.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:02.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:02.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:02.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:02.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:02.069][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-10-10 21:45:02.070][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:02.071][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:02.076][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-10-10 21:45:02.077][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:02.079][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:02.080][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:02.082][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:02.083][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:02.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:02.090][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:02.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:02.092][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:02.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:02.096][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.097][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.099][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.106][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:02.107][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:02.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.109][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.110][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:02.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:02.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.115][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:02.116][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:02.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.118][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.119][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:02.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:02.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.132][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:02.133][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:02.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.136][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.137][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:02.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:02.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.142][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:02.143][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:02.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.145][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.146][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:02.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:02.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.151][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:02.152][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:02.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.154][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.156][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:02.157][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.159][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.161][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:02.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.166][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:02.167][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:02.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.169][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:02.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:02.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.175][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:02.176][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:02.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.179][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.180][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:02.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:02.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.185][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:02.186][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:02.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.189][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.190][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:02.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:02.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.195][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:02.196][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:02.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.199][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.200][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:02.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:02.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:02.252][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-10-10 21:45:02.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:02.266][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:02.267][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:02.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:02.273][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:02.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:02.275][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:02.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:02.278][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-10-10 21:45:02.279][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:02.281][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:02.284][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-10-10 21:45:02.285][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:02.286][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:02.288][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:02.290][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:02.291][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:02.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:02.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:02.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:02.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:02.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:02.303][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.304][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.306][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.313][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:02.339][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:02.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.342][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.343][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:02.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:02.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.348][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:02.349][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:02.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.351][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.353][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:02.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:02.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.357][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:02.359][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:02.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.361][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.362][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:02.363][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:02.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.366][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.367][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:02.368][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:02.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.370][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.372][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:02.373][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.375][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.377][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:02.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.381][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:02.383][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:02.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.385][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:02.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:02.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.391][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:02.392][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:02.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.394][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.396][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:02.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:02.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.401][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:02.402][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:02.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.404][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.405][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:02.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:02.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.410][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:02.411][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:02.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.414][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:02.460][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-10-10 21:45:02.461][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:02.475][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:02.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:02.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:02.482][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:02.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:02.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:02.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:02.487][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-10-10 21:45:02.488][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:02.490][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:02.493][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-10-10 21:45:02.494][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:02.496][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:02.497][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:02.499][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:02.500][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:02.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:02.507][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:02.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:02.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:02.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:02.513][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.514][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.516][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.522][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:02.524][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:02.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.532][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.534][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:02.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:02.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.539][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:02.540][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:02.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.542][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.544][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:02.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:02.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.549][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:02.550][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:02.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.552][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.553][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:02.555][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:02.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.557][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.558][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:02.560][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:02.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.562][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.563][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:02.564][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.567][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.568][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:02.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.573][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:02.574][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:02.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.576][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:02.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:02.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.582][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:02.584][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:02.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.586][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.588][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:02.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:02.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.592][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:02.594][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:02.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.596][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.597][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:02.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:02.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.602][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:02.603][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:02.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.605][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:02.657][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-10-10 21:45:02.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.664][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:02.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:02.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:02.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:02.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:02.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:02.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:02.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:02.695][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-10-10 21:45:02.697][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:02.698][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:02.709][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-10-10 21:45:02.710][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:02.711][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:02.715][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:02.717][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:02.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:02.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:02.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:02.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:02.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:02.733][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.TRACE[2025-10-10 21:45:02.736][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.737][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.743][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.751][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:02.752][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:02.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.759][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.768][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:02.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:02.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.779][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:02.780][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:02.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.786][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.788][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:02.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:02.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.807][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:02.808][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:02.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.814][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.817][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:02.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:02.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.822][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:02.823][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:02.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.829][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.833][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:02.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:02.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.841][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:02.842][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:02.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.845][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.850][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:02.851][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.856][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.857][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:02.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:02.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.862][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:02.863][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:02.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.865][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:02.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:02.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.876][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:02.878][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:02.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.880][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.881][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:02.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:02.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.893][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:02.894][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:02.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.897][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.906][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:02.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:02.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.915][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:02.920][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:02.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.922][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.926][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:02.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:02.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:02.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:02.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:02.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:02.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:02.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:03.032][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-10-10 21:45:03.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:03.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:03.081][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:03.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:03.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:03.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:03.089][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:03.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:03.092][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-10-10 21:45:03.093][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:03.099][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:03.105][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-10-10 21:45:03.106][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:03.108][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:03.109][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:03.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:03.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:03.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:03.128][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:03.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:03.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:03.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:03.138][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.145][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.148][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.154][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:03.155][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:03.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.157][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.159][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:03.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:03.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.164][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:03.165][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:03.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.167][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.169][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:03.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:03.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.173][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:03.175][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:03.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.177][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.179][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:03.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:03.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.193][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:03.194][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:03.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.196][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.198][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:03.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:03.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.207][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:03.209][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:03.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.211][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.213][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:03.220][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.223][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.227][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:03.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.234][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:03.235][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:03.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.237][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:03.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:03.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.246][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:03.248][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:03.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.250][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.251][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:03.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:03.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.256][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:03.257][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:03.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.259][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.260][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:03.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:03.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.265][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:03.266][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:03.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.268][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.270][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:03.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:03.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:03.319][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-10-10 21:45:03.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:03.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:03.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:03.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:03.341][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:03.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:03.343][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:03.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:03.345][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-10-10 21:45:03.346][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:03.348][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:03.356][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-10-10 21:45:03.362][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:03.363][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:03.364][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:03.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:03.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:03.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:03.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:03.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:03.382][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:03.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:03.385][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.387][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.389][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.395][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:03.396][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:03.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.398][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.399][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:03.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:03.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.404][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:03.405][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:03.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.407][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.409][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:03.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:03.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.413][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:03.414][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:03.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.417][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.418][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:03.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:03.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.423][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:03.424][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:03.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.426][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.427][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:03.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:03.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.432][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:03.433][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:03.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.435][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.437][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:03.438][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.440][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.441][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:03.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.446][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:03.447][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:03.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.449][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:03.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:03.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.455][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:03.456][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:03.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.458][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.462][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:03.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:03.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.467][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:03.468][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:03.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.474][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.475][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:03.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:03.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.482][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:03.483][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:03.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.485][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.486][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:03.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:03.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:03.535][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-10-10 21:45:03.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:03.550][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:03.551][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:03.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:03.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:03.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:03.559][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:03.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:03.568][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-10-10 21:45:03.569][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:03.571][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:03.576][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-10-10 21:45:03.577][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:03.578][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:03.580][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:03.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:03.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:03.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:03.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:03.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:03.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:03.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:03.595][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.596][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.598][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.604][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:03.605][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:03.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.607][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.608][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:03.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:03.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.613][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:03.614][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:03.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.616][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.618][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:03.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:03.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.622][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:03.623][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:03.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.626][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.627][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:03.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:03.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.632][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:03.633][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:03.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.635][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.637][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:03.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:03.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.641][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:03.643][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:03.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.645][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.646][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:03.648][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.650][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.651][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:03.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.656][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:03.657][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:03.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.660][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.661][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:03.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:03.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.666][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:03.667][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:03.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.669][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.670][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:03.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:03.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.675][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:03.676][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:03.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.678][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.680][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:03.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:03.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.685][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:03.686][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:03.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.688][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.689][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:03.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:03.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.708][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:03.740][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-10-10 21:45:03.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.750][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:03.761][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:03.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:03.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:03.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:03.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:03.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:03.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:03.773][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-10-10 21:45:03.774][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:03.776][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:03.783][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-10-10 21:45:03.790][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:03.793][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:03.796][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:03.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:03.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:03.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:03.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:03.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:03.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:03.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:03.811][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.813][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.815][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.821][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:03.822][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:03.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.824][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.826][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:03.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:03.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.831][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:03.832][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:03.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.834][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.835][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:03.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:03.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.840][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:03.841][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:03.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.844][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.845][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:03.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:03.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.850][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:03.851][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:03.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.853][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.855][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:03.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:03.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.859][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:03.861][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:03.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.863][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.864][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:03.865][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.868][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.869][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:03.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.874][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:03.875][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:03.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.877][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:03.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:03.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.884][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:03.885][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:03.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.887][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.889][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:03.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:03.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.893][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:03.894][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:03.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.897][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.898][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:03.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:03.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.903][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:03.904][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:03.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.906][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.908][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:03.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:03.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:03.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:03.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:03.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:03.965][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-10-10 21:45:03.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.971][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:03.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:03.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:03.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:03.980][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:03.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:03.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:03.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:03.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:03.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:03.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:03.992][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-10-10 21:45:03.993][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:03.995][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:03.999][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-10-10 21:45:04.000][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:04.001][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:04.002][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:04.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:04.017][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:04.019][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:04.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.021][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:04.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:04.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.027][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:04.028][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:04.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.030][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.032][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:04.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:04.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.037][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:04.038][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:04.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.040][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.042][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:04.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:04.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.046][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:04.048][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:04.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.050][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.051][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:04.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:04.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.056][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:04.057][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:04.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.059][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.060][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:04.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:04.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.065][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:04.066][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:04.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.068][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.070][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:04.071][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.073][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.075][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:04.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.079][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:04.080][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:04.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.083][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:04.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:04.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.089][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:04.090][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:04.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.092][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.094][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:04.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:04.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.099][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:04.100][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:04.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.102][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.104][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:04.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:04.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.108][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:04.110][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:04.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.112][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.113][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:04.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:04.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:04.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:04.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:04.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:04.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:04.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:04.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:04.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:04.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:04.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:04.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:04.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:04.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:04.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:04.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:04.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:04.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:04.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:04.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:04.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:04.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.172][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-10-10 21:45:04.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:04.205][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-10-10 21:45:04.206][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:04.208][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:04.212][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-10-10 21:45:04.216][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:04.220][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:04.222][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:04.226][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.240][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.243][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.244][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.TRACE[2025-10-10 21:45:04.247][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:04.248][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:04.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.250][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:04.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:04.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.256][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:04.257][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:04.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.260][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.261][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:04.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:04.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.267][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:04.268][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:04.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.271][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.273][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:04.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:04.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.279][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:04.280][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:04.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.283][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.285][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:04.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:04.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.291][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:04.293][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:04.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.296][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.298][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:04.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:04.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.304][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:04.305][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:04.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.307][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.309][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:04.310][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.312][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.314][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:04.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.318][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:04.320][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:04.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.322][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:04.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:04.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.328][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:04.329][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:04.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.331][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.333][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:04.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:04.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.338][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:04.339][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:04.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.341][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.343][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:04.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:04.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.347][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:04.348][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:04.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.351][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.352][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:04.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:04.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:04.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:04.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:04.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:04.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:04.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:04.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.371][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:04.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:04.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:04.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:04.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:04.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:04.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:04.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:04.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:04.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:04.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:04.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:04.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:04.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:04.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.411][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-10-10 21:45:04.412][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-10 21:45:04.447][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:04.450][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:04.454][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-10 21:45:04.456][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:04.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.467][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.469][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:04.472][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.477][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.487][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:04.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.522][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.531][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:04.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.568][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.570][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:04.573][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.603][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.604][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.612][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:04.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:04.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.645][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.662][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.664][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:04.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.671][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:04.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:04.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.721][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.731][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:04.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.763][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:04.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:04.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:04.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.836][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.848][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:04.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.868][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:04.879][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.892][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.899][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.902][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:04.904][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.921][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:04.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.952][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:04.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:04.958][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:04.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:04.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:04.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:04.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:04.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:04.989][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:04.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:04.996][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:04.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:05.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:05.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:05.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:05.007][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:05.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:05.014][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:05.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:05.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:05.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:05.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:05.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:05.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.028][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:05.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:05.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:05.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:05.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:05.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:05.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:05.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:05.046][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:05.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:05.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:05.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:05.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:05.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:05.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.055][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:05.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:05.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:05.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:05.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-10 21:45:05.138][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:05.142][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:05.148][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-10-10 21:45:05.149][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-10 21:45:05.158][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:05.165][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:05.168][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-10-10 21:45:05.170][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:05.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:05.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:05.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:05.181][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:05.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:05.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:05.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:05.185][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-10-10 21:45:05.186][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:05.188][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:05.193][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-10-10 21:45:05.195][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:05.196][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:05.198][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:05.200][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:05.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:05.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:05.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:05.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:05.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:05.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:05.222][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:05.223][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:05.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.225][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:05.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:05.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.231][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:05.232][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:05.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.234][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.236][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:05.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:05.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.241][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:05.242][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:05.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.244][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.246][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:05.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:05.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.251][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:05.252][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:05.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.254][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.255][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:05.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:05.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.260][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:05.261][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:05.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.263][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.264][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:05.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:05.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.269][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:05.270][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:05.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.272][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.274][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:05.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:05.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.278][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:05.280][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:05.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.282][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.283][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:05.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:05.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.288][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.289][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.291][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.297][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:05.299][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:05.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.301][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.303][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:05.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:05.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.307][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:05.308][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:05.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.310][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.312][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:05.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:05.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.317][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:05.318][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:05.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.320][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.322][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:05.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:05.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:05.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:05.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:05.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:05.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:05.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:05.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:05.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:05.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:05.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:05.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:05.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:05.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:05.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:05.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:05.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:05.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:05.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:05.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:05.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:05.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:05.385][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-10-10 21:45:05.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:05.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:05.410][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:05.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:05.426][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:05.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:05.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:05.430][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[2025-10-10 21:45:05.432][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.438][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:05.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:05.451][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:05.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:05.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:05.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:05.460][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:05.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:05.462][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-10-10 21:45:05.463][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:05.465][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:05.478][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-10-10 21:45:05.480][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:05.482][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:05.484][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:05.487][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:05.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:05.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:05.497][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:05.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:05.500][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:05.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:05.504][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:05.506][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:05.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.509][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:05.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:05.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.517][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:05.518][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:05.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.521][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.523][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:05.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:05.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.529][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:05.531][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:05.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.534][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.536][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:05.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:05.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.542][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:05.544][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:05.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.546][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.548][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:05.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:05.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.554][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:05.556][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:05.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.559][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.561][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:05.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:05.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.567][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:05.569][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:05.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.571][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.573][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:05.575][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:05.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.578][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.580][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:05.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:05.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.584][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.586][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.588][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.594][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:05.595][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:05.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.597][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.599][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:05.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:05.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.604][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:05.605][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:05.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.607][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.609][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:05.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:05.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.613][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:05.615][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:05.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.617][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.618][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:05.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:05.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:05.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:05.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:05.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:05.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:05.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:05.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:05.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:05.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:05.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:05.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:05.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:05.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:05.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:05.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:05.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:05.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:05.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:05.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:05.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:05.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:05.677][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-10-10 21:45:05.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-10 21:45:05.713][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:05.716][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:05.720][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-10 21:45:05.722][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:05.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:05.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:05.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:05.733][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:05.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:05.735][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:05.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:05.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:05.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:05.753][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:05.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:05.760][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:05.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:05.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:05.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:05.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:05.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:05.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:05.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:05.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:05.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:05.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:05.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:05.800][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:05.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:05.825][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:05.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:05.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:05.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:05.833][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:05.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:05.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:05.868][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:05.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:05.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:05.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:05.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:05.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:05.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:05.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:05.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:05.900][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:05.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:05.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:05.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:05.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:05.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:05.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:05.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:05.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:05.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:05.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:05.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:05.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:05.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:05.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.943][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:05.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:05.953][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:05.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:05.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:05.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:05.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:05.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:05.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:05.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:05.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:05.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:05.988][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:05.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:05.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.002][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.019][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.020][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.029][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.107][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.108][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.119][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.190][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.233][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.250][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.251][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.271][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.277][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.304][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.318][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.341][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-10 21:45:06.379][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:06.382][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:06.386][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-10 21:45:06.387][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:06.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.428][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.432][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.442][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.451][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.458][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.500][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.526][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.581][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.598][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.599][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.609][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.623][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.661][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.684][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.698][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.702][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.707][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.723][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.742][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.758][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.759][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.783][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.784][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.792][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.808][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.809][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.820][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.829][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.834][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.835][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.843][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.860][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.895][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.896][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.904][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.932][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.937][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:06.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:06.947][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:06.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:06.954][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:06.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:06.956][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:06.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:06.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:06.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:06.988][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-10 21:45:06.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-10 21:45:06.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:06.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-10 21:45:07.002][biodb::testThat]
biodb.INFO [2025-10-10 21:45:07.003][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-10-10 21:45:07.004][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:45:07.005][biodb::testThat]
biodb.TRACE[2025-10-10 21:45:07.009][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-10 21:45:07.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-10 21:45:07.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.028][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:07.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:07.037][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:07.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:07.044][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:07.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:07.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:07.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-10 21:45:07.050][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:07.053][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:07.055][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-10 21:45:07.057][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:07.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:07.060][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:07.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:07.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:07.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:07.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:07.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:07.071][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.088][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-10 21:45:07.094][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:07.097][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:07.099][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-10 21:45:07.100][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:07.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:07.104][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:07.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:07.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:07.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:07.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:07.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:07.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:07.129][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:07.130][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:07.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:07.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:07.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:07.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:07.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:07.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:07.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:07.155][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-10 21:45:07.157][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:07.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:07.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:07.165][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:07.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:07.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:07.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:07.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.179][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.180][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-10 21:45:07.181][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-10 21:45:07.182][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-10 21:45:07.183][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.184][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.186][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.188][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.189][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.190][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.192][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.194][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.195][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.196][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.197][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.199][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.200][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-10 21:45:07.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.226][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-10 21:45:07.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:07.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:07.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:07.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:07.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:07.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:07.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:07.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.249][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.250][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-10 21:45:07.251][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-10 21:45:07.253][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-10 21:45:07.254][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.255][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.256][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.258][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.259][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.261][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.263][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.264][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.265][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.273][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.274][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.278][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.279][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-10 21:45:07.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.299][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-10 21:45:07.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:07.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:07.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:07.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:07.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:07.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:07.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:07.316][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.328][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.329][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-10 21:45:07.331][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-10 21:45:07.332][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-10 21:45:07.333][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.334][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.335][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.338][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.339][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.340][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.342][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.344][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.345][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.346][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.347][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.349][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.351][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-10 21:45:07.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.366][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-10 21:45:07.367][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-10 21:45:07.368][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-10 21:45:07.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:07.471][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:07.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:07.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:07.479][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:07.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:07.481][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:07.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-10 21:45:07.485][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:07.488][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:07.492][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-10 21:45:07.494][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-10 21:45:07.497][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:07.501][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:07.505][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-10 21:45:07.506][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:07.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:07.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:07.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:07.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:07.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:07.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:07.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:07.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:07.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:07.544][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:07.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:07.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:07.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:07.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:07.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:07.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:07.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:07.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:07.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:07.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:07.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:07.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:07.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:07.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:07.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:07.655][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-10 21:45:07.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:07.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:07.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:07.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:07.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:07.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:07.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:07.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.732][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.733][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-10 21:45:07.734][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-10 21:45:07.736][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-10 21:45:07.737][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.739][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.740][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.743][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.745][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.746][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.749][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.751][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.752][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.754][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.755][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.758][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.760][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-10 21:45:07.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.780][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-10 21:45:07.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:07.783][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:07.784][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:07.793][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:07.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:07.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:07.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:07.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.871][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.873][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-10 21:45:07.874][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-10 21:45:07.876][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-10 21:45:07.877][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.879][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.880][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.883][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.885][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.886][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.889][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.891][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.909][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.912][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.913][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.917][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.918][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-10 21:45:07.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.948][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-10 21:45:07.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:07.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:07.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:07.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:07.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:07.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:07.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:07.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.977][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.978][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-10 21:45:07.979][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-10 21:45:07.981][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-10 21:45:07.982][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.984][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.985][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.988][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.990][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.991][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:07.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:07.994][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:07.996][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.997][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:07.999][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.000][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.003][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.005][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-10 21:45:08.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.012][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.018][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.025][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-10 21:45:08.026][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-10 21:45:08.028][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-10 21:45:08.041][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-10 21:45:08.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-10 21:45:08.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-10 21:45:08.052][biodb::testThat]
biodb.INFO [2025-10-10 21:45:08.053][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-10-10 21:45:08.055][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:45:08.056][biodb::testThat]
biodb.TRACE[2025-10-10 21:45:08.061][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-10 21:45:08.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-10 21:45:08.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.071][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.078][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.094][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:08.101][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:08.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:08.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:08.109][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:08.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:08.111][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:08.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-10 21:45:08.115][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:08.118][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:08.120][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-10 21:45:08.121][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:08.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:08.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:08.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:08.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:08.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:08.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:08.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:08.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-10 21:45:08.151][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:08.154][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:08.156][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-10 21:45:08.158][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:08.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:08.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:08.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:08.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:08.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:08.178][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:08.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:08.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:08.194][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:08.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:08.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:08.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:08.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:08.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:08.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:08.206][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:08.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:08.220][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-10 21:45:08.222][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:08.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:08.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:08.230][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:08.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:08.232][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:08.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:08.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.278][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.279][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-10 21:45:08.280][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-10 21:45:08.281][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-10 21:45:08.283][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.284][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.285][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.287][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.288][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.290][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.292][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.293][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.295][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.296][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.297][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.299][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.301][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-10 21:45:08.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.316][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-10 21:45:08.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:08.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:08.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:08.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:08.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:08.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:08.327][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[2025-10-10 21:45:08.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.338][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.339][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-10 21:45:08.340][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-10 21:45:08.341][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-10 21:45:08.342][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.343][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.354][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.359][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.360][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.362][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.364][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.365][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.366][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.367][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.368][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.371][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.372][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-10 21:45:08.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.404][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-10 21:45:08.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:08.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:08.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:08.419][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:08.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:08.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:08.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:08.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.534][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.535][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-10 21:45:08.536][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-10 21:45:08.537][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-10 21:45:08.544][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.546][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.547][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.549][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.550][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.551][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.553][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.559][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.560][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.561][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.565][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.567][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.568][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-10 21:45:08.575][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.588][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.593][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-10 21:45:08.594][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-10 21:45:08.595][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-10 21:45:08.609][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:08.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:08.635][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:08.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:08.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:08.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:08.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:08.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-10 21:45:08.676][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:08.682][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:08.684][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-10 21:45:08.686][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-10 21:45:08.693][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:08.704][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:08.711][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-10 21:45:08.716][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:08.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:08.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:08.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:08.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:08.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:08.728][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:08.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:08.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:08.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:08.745][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:08.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:08.750][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:08.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:08.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:08.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:08.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:08.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:08.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:08.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:08.776][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:08.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:08.779][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:08.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:08.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:08.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:08.795][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-10 21:45:08.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:08.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:08.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:08.804][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:08.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:08.806][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:08.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:08.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.853][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.855][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-10 21:45:08.856][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-10 21:45:08.857][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-10 21:45:08.859][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.860][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.861][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.863][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.864][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.865][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.867][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.869][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.870][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.878][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.879][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.882][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.883][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-10 21:45:08.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.898][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-10 21:45:08.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:08.900][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:08.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:08.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:08.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:08.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:08.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:08.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.920][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.922][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-10 21:45:08.923][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-10 21:45:08.924][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-10 21:45:08.925][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.926][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.927][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.929][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.931][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.932][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.934][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.935][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.936][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:08.937][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.939][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.941][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.942][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-10 21:45:08.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.957][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-10 21:45:08.959][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:08.960][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:08.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:08.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:08.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:08.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:08.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:08.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:08.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:08.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:08.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.039][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.041][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-10 21:45:09.042][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-10 21:45:09.047][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-10 21:45:09.048][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.049][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.052][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.055][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.056][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.057][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.063][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.065][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.068][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.069][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.070][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.072][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.073][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-10 21:45:09.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.115][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-10 21:45:09.117][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-10 21:45:09.118][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-10 21:45:09.132][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-10 21:45:09.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-10 21:45:09.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-10 21:45:09.153][biodb::testThat]
biodb.INFO [2025-10-10 21:45:09.154][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-10-10 21:45:09.155][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:45:09.156][biodb::testThat]
biodb.TRACE[2025-10-10 21:45:09.167][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-10 21:45:09.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-10 21:45:09.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:09.275][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:09.276][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:09.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:09.292][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:09.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:09.301][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:09.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-10 21:45:09.314][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:09.321][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:09.330][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-10 21:45:09.332][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:09.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:09.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:09.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:09.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:09.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:09.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:09.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:09.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.361][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-10 21:45:09.367][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:09.370][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:09.372][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-10 21:45:09.373][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:09.376][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:09.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:09.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:09.385][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:09.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:09.387][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:09.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:09.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.394][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.399][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:09.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:09.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:09.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:09.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:09.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:09.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:09.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:09.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:09.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:09.431][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-10 21:45:09.433][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:09.435][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:09.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:09.441][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:09.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:09.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:09.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:09.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.462][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.463][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-10 21:45:09.465][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-10 21:45:09.466][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-10 21:45:09.467][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.468][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.470][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.472][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.473][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.474][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.476][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.478][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.479][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.480][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.481][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.483][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.484][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-10 21:45:09.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.500][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-10 21:45:09.502][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:09.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:09.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:09.509][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:09.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:09.512][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:09.513][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.TRACE[2025-10-10 21:45:09.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.524][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.526][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-10 21:45:09.527][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-10 21:45:09.528][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-10 21:45:09.529][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.530][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.532][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.534][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.535][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.537][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.539][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.540][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.542][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.543][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.544][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.547][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.548][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-10 21:45:09.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.564][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-10 21:45:09.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:09.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:09.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:09.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:09.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:09.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:09.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:09.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.589][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.591][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-10 21:45:09.592][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-10 21:45:09.593][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-10 21:45:09.594][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.595][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.597][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.599][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.600][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.601][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.604][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.605][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.606][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.608][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.609][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.611][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.612][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-10 21:45:09.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.629][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-10 21:45:09.631][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-10 21:45:09.632][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-10 21:45:09.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.681][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:09.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:09.692][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:09.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:09.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:09.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:09.702][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:09.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-10 21:45:09.708][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:09.712][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:09.715][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-10 21:45:09.717][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-10 21:45:09.722][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:09.727][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:09.731][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-10 21:45:09.732][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:09.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:09.738][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:09.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:09.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:09.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:09.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:09.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:09.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:09.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:09.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:09.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:09.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:09.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:09.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:09.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:09.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.810][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:09.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:09.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:09.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:09.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:09.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:09.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:09.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:09.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:09.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:09.854][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-10 21:45:09.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:09.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:09.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:09.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:09.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:09.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:09.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:09.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.885][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.887][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-10 21:45:09.888][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-10 21:45:09.890][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-10 21:45:09.891][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.893][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.895][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.898][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.899][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.901][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.912][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.913][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.915][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.917][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.919][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.921][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.922][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-10 21:45:09.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.939][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-10 21:45:09.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:09.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:09.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:09.948][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:09.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:09.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:09.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:09.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.963][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.964][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-10 21:45:09.965][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-10 21:45:09.966][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-10 21:45:09.968][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.969][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.970][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.972][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.974][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.975][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.977][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.978][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.980][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:09.981][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.982][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.984][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.985][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-10 21:45:09.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.992][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:09.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:09.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:09.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.002][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-10 21:45:10.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:10.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:10.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:10.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:10.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:10.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:10.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:10.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.027][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:10.028][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-10 21:45:10.029][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-10 21:45:10.030][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-10 21:45:10.032][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:10.033][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.034][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.036][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.038][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.039][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.041][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.043][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:10.044][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-10 21:45:10.045][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.047][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.049][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.050][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-10 21:45:10.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.068][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-10 21:45:10.069][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-10 21:45:10.070][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-10 21:45:10.094][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-10 21:45:10.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-10 21:45:10.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-10 21:45:10.103][biodb::testThat]
biodb.INFO [2025-10-10 21:45:10.104][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-10-10 21:45:10.105][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:45:10.106][biodb::testThat]
biodb.DEBUG[2025-10-10 21:45:10.116][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-10-10 21:45:10.117][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:10.120][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:10.124][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-10-10 21:45:10.125][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:10.127][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:10.128][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:10.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:10.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:10.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:10.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:10.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:10.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:10.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:10.143][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.145][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.147][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.153][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:10.154][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:10.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.157][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.158][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:10.159][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:10.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.162][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.163][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:10.164][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:10.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.167][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.168][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:10.169][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:10.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.172][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.173][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:10.174][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:10.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.176][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.178][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:10.179][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:10.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.181][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.183][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:10.184][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:10.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.186][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.188][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:10.189][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:10.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.191][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.193][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:10.194][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:10.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.196][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.198][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:10.199][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:10.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.201][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:10.250][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-10-10 21:45:10.251][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-10-10 21:45:10.260][biodb::testThat]
biodb.INFO [2025-10-10 21:45:10.261][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-10-10 21:45:10.262][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:45:10.263][biodb::testThat]
biodb.DEBUG[2025-10-10 21:45:10.282][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-10-10 21:45:10.284][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-10-10 21:45:10.285][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-10-10 21:45:10.291][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:10.297][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-10-10 21:45:10.309][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-10-10 21:45:10.317][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-10-10 21:45:10.318][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:10.320][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-10-10 21:45:10.325][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:10.331][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:10.332][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:10.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:10.346][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:10.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:10.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:10.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:10.371][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.373][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.375][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.381][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:10.382][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:10.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.385][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.386][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:10.387][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:10.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.389][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.391][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:10.392][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:10.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.394][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.396][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:10.397][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:10.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.399][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.400][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:10.402][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:10.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.404][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.405][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:10.406][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:10.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.409][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.410][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:10.411][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:10.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.413][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.415][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:10.416][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:10.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.418][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.420][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:10.421][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:10.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.423][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.425][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:10.426][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:10.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.428][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:10.517][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:10.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:10.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:10.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:10.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:10.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:10.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:10.560][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.565][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.567][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.588][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:10.591][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:10.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.593][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.595][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:10.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:10.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.608][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:10.613][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:10.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.615][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.624][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:10.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:10.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.640][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:10.642][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:10.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.652][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.653][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:10.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:10.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.662][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:10.663][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:10.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.665][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.666][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:10.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:10.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.671][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:10.672][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:10.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.674][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.676][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:10.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:10.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.684][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:10.689][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:10.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.691][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.697][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:10.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:10.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.708][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:10.714][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:10.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.735][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:10.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:10.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.748][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:10.749][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:10.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.755][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.757][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:10.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:10.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.766][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:10.769][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:10.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.771][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.772][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:10.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:10.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.785][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:10.786][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:10.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.792][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.794][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:10.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:10.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:10.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:10.848][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:10.849][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:10.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:10.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:10.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:10.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:10.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:10.861][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.862][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.865][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:10.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:10.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.883][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:10.889][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:10.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.892][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.897][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:10.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:10.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.910][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:10.912][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:10.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.914][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.918][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:10.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:10.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.927][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:10.931][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:10.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.933][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.939][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:10.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:10.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.949][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:10.950][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:10.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.957][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.961][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:10.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:10.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.972][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:10.974][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:10.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.980][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.982][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:10.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:10.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:10.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:10.993][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:10.995][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:11.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.002][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.003][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:11.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:11.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.015][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:11.016][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:11.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.019][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:11.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:11.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.033][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:11.039][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:11.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.042][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.044][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:11.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:11.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.051][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:11.052][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:11.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.055][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.057][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:11.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:11.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.063][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:11.073][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:11.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.077][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.079][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:11.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:11.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:11.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:11.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.091][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:11.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:11.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:11.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:11.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:11.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:11.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:11.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:11.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:11.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:11.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:11.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:11.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:11.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:11.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:11.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:11.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:11.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:11.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:11.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:11.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:11.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:11.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:11.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:11.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:11.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:11.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:11.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:11.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:11.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:11.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:11.169][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-10-10 21:45:11.170][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-10-10 21:45:11.171][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-10-10 21:45:11.185][biodb::testThat]
biodb.INFO [2025-10-10 21:45:11.187][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-10-10 21:45:11.188][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:45:11.189][biodb::testThat]
biodb.INFO [2025-10-10 21:45:11.214][biodb::testThat]
biodb.INFO [2025-10-10 21:45:11.215][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-10-10 21:45:11.216][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:45:11.217][biodb::testThat]
biodb.INFO [2025-10-10 21:45:11.226][biodb::testThat]
biodb.INFO [2025-10-10 21:45:11.227][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-10-10 21:45:11.228][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:45:11.229][biodb::testThat]
sched.DEBUG[2025-10-10 21:45:11.232][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:11.235][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:11.248][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-10-10 21:45:11.250][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-10 21:45:11.262][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:11.264][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:11.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.266][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:11.267][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:11.268][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:11.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:11.270][ef$get] fields variable is a list.
biodb.INFO [2025-10-10 21:45:11.277][biodb::testThat]
biodb.INFO [2025-10-10 21:45:11.278][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-10-10 21:45:11.279][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:45:11.280][biodb::testThat]
biodb.ERROR[2025-10-10 21:45:11.296][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-10-10 21:45:11.315][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-10-10 21:45:11.330][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-10 21:45:11.332][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-10 21:45:11.334][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-10 21:45:11.335][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:11.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:11.338][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:11.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:11.340][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-10 21:45:11.354][biodb::testContext]
biodb.INFO [2025-10-10 21:45:11.356][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-10 21:45:11.357][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-10-10 21:45:11.358][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-10 21:45:11.359][biodb::testContext]
biodb.INFO [2025-10-10 21:45:11.362][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-10 21:45:11.364][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-10 21:45:11.369][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-10 21:45:11.370][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-10 21:45:11.371][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-10 21:45:11.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.375][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-10 21:45:11.376][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-10 21:45:11.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.381][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-10 21:45:11.382][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-10 21:45:11.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.386][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-10 21:45:11.387][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-10 21:45:11.388][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-10 21:45:11.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.393][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-10 21:45:11.394][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-10 21:45:11.395][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-10 21:45:11.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.399][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-10 21:45:11.400][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-10 21:45:11.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.405][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-10 21:45:11.406][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-10 21:45:11.407][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-10 21:45:11.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.411][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-10 21:45:11.412][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-10 21:45:11.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.416][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-10 21:45:11.418][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-10 21:45:11.419][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-10 21:45:11.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.423][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-10 21:45:11.424][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-10 21:45:11.425][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-10 21:45:11.427][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-10 21:45:11.428][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-10 21:45:11.429][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-10 21:45:11.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.433][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-10 21:45:11.434][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-10 21:45:11.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.438][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-10 21:45:11.440][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-10 21:45:11.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.444][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-10 21:45:11.445][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-10 21:45:11.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.449][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.DEBUG[2025-10-10 21:45:11.450][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-10 21:45:11.451][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-10 21:45:11.452][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-10 21:45:11.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.464][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-10 21:45:11.466][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-10 21:45:11.470][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-10 21:45:11.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.475][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-10 21:45:11.476][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-10 21:45:11.478][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-10 21:45:11.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.482][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-10 21:45:11.484][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:11.485][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-10 21:45:11.486][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:11.488][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:45:11.489][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:11.490][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:45:11.491][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:11.492][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-10 21:45:11.493][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-10 21:45:11.494][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:45:11.496][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:11.497][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-10 21:45:11.498][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:45:11.499][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:11.501][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:11.502][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-10 21:45:11.502][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-10 21:45:11.502][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-10 21:45:11.502][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-10 21:45:11.502][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-10 21:45:11.503][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-10 21:45:11.504][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:11.505][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:11.506][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:45:11.507][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:11.508][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:11.509][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:45:11.511][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:11.512][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:45:11.513][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:45:11.514][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:11.515][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:11.517][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-10 21:45:11.519][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:11.520][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-10 21:45:11.522][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:11.523][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:45:11.524][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:11.525][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:45:11.526][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:11.536][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-10 21:45:11.537][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-10 21:45:11.538][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:45:11.543][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:11.544][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-10 21:45:11.545][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:45:11.555][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:11.556][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:11.559][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-10 21:45:11.559][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-10 21:45:11.559][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-10 21:45:11.559][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-10 21:45:11.559][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-10 21:45:11.560][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-10 21:45:11.562][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:11.571][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:11.572][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:45:11.576][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:11.578][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:11.583][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:45:11.584][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:11.585][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:45:11.588][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:45:11.589][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:11.590][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:11.592][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-10 21:45:11.598][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:11.600][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-10 21:45:11.602][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:11.604][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:45:11.605][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:11.606][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:45:11.607][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:11.608][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-10 21:45:11.609][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-10 21:45:11.610][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:45:11.611][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:11.612][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-10 21:45:11.613][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:45:11.614][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:11.615][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:11.617][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:11.618][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-10 21:45:11.619][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:11.620][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:11.621][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:45:11.622][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:11.623][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:11.624][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:45:11.625][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:11.626][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:45:11.627][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:45:11.629][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:11.630][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:11.631][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-10 21:45:11.633][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:11.634][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-10 21:45:11.635][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:11.637][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:45:11.638][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:11.639][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:45:11.640][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:11.641][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-10 21:45:11.642][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-10 21:45:11.643][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:45:11.645][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:11.646][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-10 21:45:11.647][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:45:11.648][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:11.649][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:11.650][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:11.651][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-10 21:45:11.653][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:11.654][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:11.655][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:45:11.656][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:11.657][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:11.658][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:45:11.659][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:11.660][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:45:11.661][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:45:11.662][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:11.664][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:11.665][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-10 21:45:11.666][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:11.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:11.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:11.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:11.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:11.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:11.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:11.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:11.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:11.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:11.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:11.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:11.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:11.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:11.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:11.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:11.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:11.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:11.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:11.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:11.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:11.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:11.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.733][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[2025-10-10 21:45:11.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:11.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:11.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:11.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:11.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:11.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:11.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:11.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:11.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:11.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:11.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:11.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:11.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:11.759][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[2025-10-10 21:45:11.760][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-10 21:45:11.762][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-10 21:45:11.763][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-10 21:45:11.765][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-10 21:45:11.767][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-10 21:45:11.768][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-10 21:45:11.770][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-10 21:45:11.772][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-10 21:45:11.773][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-10 21:45:11.775][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-10 21:45:11.776][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-10 21:45:11.778][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-10 21:45:11.780][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-10 21:45:11.781][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-10 21:45:11.783][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-10 21:45:11.784][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-10 21:45:11.786][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-10 21:45:11.788][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-10 21:45:11.789][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-10 21:45:11.791][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-10 21:45:11.792][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-10 21:45:11.794][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-10 21:45:11.796][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-10 21:45:11.801][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-10 21:45:11.806][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-10 21:45:11.808][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-10 21:45:11.810][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-10 21:45:11.811][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-10 21:45:11.813][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-10 21:45:11.819][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-10 21:45:11.821][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-10 21:45:11.826][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-10 21:45:11.830][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-10 21:45:11.832][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-10 21:45:11.837][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-10 21:45:11.839][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-10 21:45:11.841][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-10 21:45:11.842][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-10 21:45:11.845][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-10 21:45:11.847][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-10 21:45:11.854][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-10 21:45:11.856][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-10 21:45:11.858][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-10 21:45:11.859][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-10 21:45:11.861][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-10 21:45:11.862][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-10 21:45:11.864][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-10 21:45:11.865][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-10 21:45:11.867][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-10 21:45:11.869][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-10 21:45:11.870][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-10 21:45:11.872][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-10 21:45:11.874][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-10 21:45:11.876][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-10 21:45:11.877][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-10 21:45:11.879][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-10 21:45:11.881][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-10 21:45:11.882][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-10 21:45:11.884][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-10 21:45:11.885][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-10 21:45:11.887][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-10 21:45:11.889][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-10 21:45:11.890][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-10 21:45:12.093][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-10 21:45:12.096][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-10 21:45:12.098][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-10 21:45:12.100][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-10 21:45:12.102][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-10 21:45:12.104][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-10 21:45:12.106][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-10 21:45:12.108][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-10 21:45:12.110][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-10 21:45:12.112][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-10 21:45:12.114][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-10 21:45:12.116][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-10 21:45:12.118][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-10 21:45:12.120][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-10 21:45:12.122][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-10 21:45:12.124][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-10 21:45:12.126][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-10 21:45:12.128][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-10 21:45:12.130][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-10 21:45:12.132][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-10 21:45:12.134][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-10 21:45:12.137][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-10 21:45:12.138][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-10 21:45:12.139][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.142][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.161][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[2025-10-10 21:45:12.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.224][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[2025-10-10 21:45:12.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.280][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.290][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-10 21:45:12.292][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-10 21:45:12.295][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:12.296][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-10 21:45:12.298][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:12.299][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:45:12.301][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:12.302][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:45:12.304][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:12.305][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-10 21:45:12.307][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-10 21:45:12.308][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:45:12.310][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:12.311][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-10 21:45:12.312][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:45:12.314][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-10 21:45:12.314][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-10 21:45:12.314][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-10 21:45:12.314][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-10 21:45:12.314][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-10 21:45:12.314][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-10 21:45:12.314][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-10 21:45:12.314][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-10 21:45:12.314][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-10 21:45:12.314][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-10 21:45:12.314][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-10 21:45:12.316][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:12.317][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-10 21:45:12.317][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-10 21:45:12.317][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-10 21:45:12.319][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-10 21:45:12.320][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:12.321][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:12.323][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:45:12.324][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:12.325][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:12.327][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:45:12.328][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-10 21:45:12.328][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-10 21:45:12.330][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:45:12.344][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:45:12.346][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:12.369][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-10 21:45:12.369][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-10 21:45:12.372][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-10 21:45:12.379][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-10 21:45:12.384][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-10 21:45:12.390][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-10 21:45:12.395][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-10 21:45:12.398][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-10 21:45:12.404][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-10 21:45:12.409][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-10 21:45:12.411][biodb::testThat]
biodb.INFO [2025-10-10 21:45:12.413][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-10-10 21:45:12.414][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:45:12.416][biodb::testThat]
sched.DEBUG[2025-10-10 21:45:12.420][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-10 21:45:12.424][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:12.433][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-10 21:45:12.435][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-10 21:45:12.441][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:12.445][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:12.451][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-10 21:45:12.453][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:12.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:12.458][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.468][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.473][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".
sched.DEBUG[2025-10-10 21:45:12.477][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:12.481][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:12.485][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-10 21:45:12.487][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:12.489][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:12.491][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.502][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:12.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-10 21:45:12.571][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:12.576][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:12.579][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-10 21:45:12.581][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:12.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:12.586][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.602][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-10 21:45:12.607][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:12.612][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:12.615][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-10 21:45:12.617][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:12.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:12.621][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:12.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.653][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-10 21:45:12.663][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:12.667][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:12.670][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-10 21:45:12.672][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:12.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:12.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.684][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-10 21:45:12.691][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:12.695][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:12.698][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-10 21:45:12.699][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:12.702][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:12.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-10 21:45:12.718][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:12.722][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:12.725][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-10-10 21:45:12.728][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:12.731][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:12.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.746][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.INFO [2025-10-10 21:45:12.756][biodb::testThat]
biodb.INFO [2025-10-10 21:45:12.757][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-10-10 21:45:12.759][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:45:12.760][biodb::testThat]
sched.DEBUG[2025-10-10 21:45:12.765][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:12.769][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:12.772][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-10-10 21:45:12.773][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:12.781][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:12.783][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.784][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.794][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.796][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".
sched.DEBUG[2025-10-10 21:45:12.802][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:12.806][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:12.809][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-10-10 21:45:12.810][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:12.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:12.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-10 21:45:12.833][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-10 21:45:12.835][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-10 21:45:12.836][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-10 21:45:12.837][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:12.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:12.840][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:12.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:12.843][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-10 21:45:12.849][biodb::testContext]
biodb.INFO [2025-10-10 21:45:12.850][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-10 21:45:12.852][biodb::testContext] Test context - Test web services
biodb.INFO [2025-10-10 21:45:12.853][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-10 21:45:12.854][biodb::testContext]
biodb.INFO [2025-10-10 21:45:12.857][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-10 21:45:12.860][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-10 21:45:12.865][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-10 21:45:12.867][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-10 21:45:12.868][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-10 21:45:12.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.874][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-10 21:45:12.875][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-10 21:45:12.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.880][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-10 21:45:12.882][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-10 21:45:12.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.887][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-10 21:45:12.889][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-10 21:45:12.890][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-10 21:45:12.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.895][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-10 21:45:12.897][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-10 21:45:12.898][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-10 21:45:12.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.904][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-10 21:45:12.905][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-10 21:45:12.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.910][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-10 21:45:12.912][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-10 21:45:12.913][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-10 21:45:12.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.919][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-10 21:45:12.920][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-10 21:45:12.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.926][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-10 21:45:12.927][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-10 21:45:12.929][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-10 21:45:12.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.934][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-10 21:45:12.935][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-10 21:45:12.937][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-10 21:45:12.938][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-10 21:45:12.940][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-10 21:45:12.941][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-10 21:45:12.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.946][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-10 21:45:12.948][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-10 21:45:12.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.953][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-10 21:45:12.955][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-10 21:45:12.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.960][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-10 21:45:12.962][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-10 21:45:12.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.967][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-10 21:45:12.969][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-10 21:45:12.970][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-10 21:45:12.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.975][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-10 21:45:12.977][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-10 21:45:12.986][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-10 21:45:12.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:12.992][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-10 21:45:12.994][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-10 21:45:12.995][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-10 21:45:12.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:12.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:12.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.000][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-10 21:45:13.003][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:13.004][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-10 21:45:13.006][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.007][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:45:13.009][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.010][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:45:13.012][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:13.013][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-10 21:45:13.015][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-10 21:45:13.016][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:45:13.017][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.019][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-10 21:45:13.020][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:45:13.022][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:13.023][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.025][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-10 21:45:13.025][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-10 21:45:13.025][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-10 21:45:13.025][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-10 21:45:13.025][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-10 21:45:13.026][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-10 21:45:13.028][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:13.029][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:13.030][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:45:13.032][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:13.033][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:13.034][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:45:13.036][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:13.037][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:45:13.039][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:45:13.040][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:13.042][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:13.043][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-10 21:45:13.046][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:13.047][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-10 21:45:13.049][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.051][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:45:13.052][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.053][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:45:13.055][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:13.056][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-10 21:45:13.058][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-10 21:45:13.059][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:45:13.061][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.062][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-10 21:45:13.064][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:45:13.065][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:13.067][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.068][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-10 21:45:13.068][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-10 21:45:13.068][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-10 21:45:13.068][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-10 21:45:13.068][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-10 21:45:13.070][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-10 21:45:13.071][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:13.072][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:13.074][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:45:13.075][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:13.077][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:13.078][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:45:13.080][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:13.081][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:45:13.082][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:45:13.084][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:13.085][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:13.087][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-10 21:45:13.090][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.091][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-10 21:45:13.093][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.094][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:45:13.096][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.097][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:45:13.099][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:13.100][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-10 21:45:13.102][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-10 21:45:13.111][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:45:13.112][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:13.114][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-10 21:45:13.115][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:45:13.117][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:13.118][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.120][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:13.121][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-10 21:45:13.123][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:13.124][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:13.125][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:45:13.127][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:13.128][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:13.129][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:45:13.131][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:13.132][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:45:13.133][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:45:13.135][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:13.136][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:13.138][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-10 21:45:13.140][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.142][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-10 21:45:13.143][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.145][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:45:13.146][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.148][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:45:13.149][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:13.150][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-10 21:45:13.152][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-10 21:45:13.153][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:45:13.155][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:13.156][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-10 21:45:13.158][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:45:13.159][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:13.161][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.162][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:13.164][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-10 21:45:13.165][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:13.166][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:13.168][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:45:13.169][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:13.170][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:13.172][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:45:13.173][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:13.175][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:45:13.176][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:45:13.177][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:13.179][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:13.181][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-10 21:45:13.182][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.183][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[2025-10-10 21:45:13.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.196][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[2025-10-10 21:45:13.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.209][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.DEBUG[2025-10-10 21:45:13.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.216][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.DEBUG[2025-10-10 21:45:13.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.254][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.DEBUG[2025-10-10 21:45:13.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.313][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-10 21:45:13.316][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-10 21:45:13.321][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-10 21:45:13.323][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-10 21:45:13.329][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-10 21:45:13.331][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-10 21:45:13.333][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-10 21:45:13.339][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-10 21:45:13.341][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-10 21:45:13.343][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-10 21:45:13.347][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-10 21:45:13.349][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-10 21:45:13.354][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-10 21:45:13.356][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-10 21:45:13.361][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-10 21:45:13.363][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-10 21:45:13.365][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-10 21:45:13.371][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-10 21:45:13.373][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-10 21:45:13.377][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-10 21:45:13.380][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-10 21:45:13.382][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-10 21:45:13.388][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-10 21:45:13.392][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-10 21:45:13.394][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-10 21:45:13.396][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-10 21:45:13.398][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-10 21:45:13.404][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-10 21:45:13.406][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-10 21:45:13.414][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-10 21:45:13.418][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-10 21:45:13.420][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-10 21:45:13.422][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-10 21:45:13.424][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-10 21:45:13.426][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-10 21:45:13.428][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-10 21:45:13.429][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-10 21:45:13.431][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-10 21:45:13.433][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-10 21:45:13.435][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-10 21:45:13.437][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-10 21:45:13.439][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-10 21:45:13.441][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-10 21:45:13.444][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-10 21:45:13.446][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-10 21:45:13.448][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-10 21:45:13.450][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-10 21:45:13.456][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-10 21:45:13.458][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-10 21:45:13.462][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-10 21:45:13.469][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-10 21:45:13.471][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-10 21:45:13.475][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-10 21:45:13.477][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-10 21:45:13.479][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-10 21:45:13.481][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-10 21:45:13.483][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-10 21:45:13.485][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-10 21:45:13.491][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-10 21:45:13.495][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-10 21:45:13.497][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-10 21:45:13.503][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-10 21:45:13.506][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-10 21:45:13.511][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-10 21:45:13.517][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-10 21:45:13.519][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-10 21:45:13.524][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-10 21:45:13.526][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-10 21:45:13.529][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-10 21:45:13.534][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-10 21:45:13.540][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-10 21:45:13.542][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-10 21:45:13.546][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-10 21:45:13.548][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-10 21:45:13.550][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-10 21:45:13.552][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-10 21:45:13.554][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-10 21:45:13.561][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-10 21:45:13.565][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-10 21:45:13.567][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-10 21:45:13.569][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-10 21:45:13.571][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-10 21:45:13.577][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-10 21:45:13.583][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-10 21:45:13.589][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-10 21:45:13.590][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-10 21:45:13.592][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.594][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:13.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:13.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:13.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:13.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:13.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:13.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:13.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:13.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:13.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:13.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.680][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[2025-10-10 21:45:13.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:13.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:13.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:13.705][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:13.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:13.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:13.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:13.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:13.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:13.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:13.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:13.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:13.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:13.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:13.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:13.784][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:13.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:13.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:13.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:13.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:13.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:13.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:13.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.830][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-10 21:45:13.832][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-10 21:45:13.834][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:13.837][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-10 21:45:13.838][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.839][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:45:13.841][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.842][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:45:13.843][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.844][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-10 21:45:13.845][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-10 21:45:13.846][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:45:13.847][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.848][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-10 21:45:13.849][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:45:13.854][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-10 21:45:13.854][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-10 21:45:13.854][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-10 21:45:13.854][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-10 21:45:13.854][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-10 21:45:13.854][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-10 21:45:13.854][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-10 21:45:13.854][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-10 21:45:13.854][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-10 21:45:13.854][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-10 21:45:13.854][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-10 21:45:13.855][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:13.856][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-10 21:45:13.856][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-10 21:45:13.856][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-10 21:45:13.857][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-10 21:45:13.858][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:13.862][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:13.863][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:45:13.864][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:13.866][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:13.867][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:45:13.869][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-10 21:45:13.869][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-10 21:45:13.870][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:45:13.871][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:45:13.873][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:13.874][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-10 21:45:13.874][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-10 21:45:13.876][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-10 21:45:13.878][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-10 21:45:13.880][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-10 21:45:13.881][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-10 21:45:13.883][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-10 21:45:13.885][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-10 21:45:13.889][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-10 21:45:13.892][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-10 21:45:13.894][biodb::testThat]
biodb.INFO [2025-10-10 21:45:13.895][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-10-10 21:45:13.896][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:45:13.897][biodb::testThat]
sched.DEBUG[2025-10-10 21:45:13.900][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-10 21:45:13.902][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:13.909][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-10 21:45:13.910][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-10 21:45:13.914][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:13.917][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:13.924][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-10 21:45:13.925][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-10 21:45:13.947][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-10 21:45:13.949][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-10 21:45:13.953][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-10 21:45:13.954][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:13.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:13.961][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:13.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:13.963][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-10 21:45:13.972][biodb::testContext]
biodb.INFO [2025-10-10 21:45:13.973][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-10 21:45:13.974][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-10-10 21:45:13.975][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-10 21:45:13.976][biodb::testContext]
biodb.INFO [2025-10-10 21:45:13.979][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-10 21:45:13.981][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-10 21:45:13.985][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-10 21:45:13.986][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-10 21:45:13.987][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-10 21:45:13.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.991][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-10 21:45:13.993][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-10 21:45:13.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:13.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:13.997][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-10 21:45:13.998][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-10 21:45:13.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:13.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.001][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-10 21:45:14.002][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-10 21:45:14.004][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-10 21:45:14.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.008][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-10 21:45:14.009][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-10 21:45:14.010][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-10 21:45:14.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.014][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-10 21:45:14.015][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-10 21:45:14.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.020][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-10 21:45:14.021][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-10 21:45:14.022][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-10 21:45:14.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.026][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-10 21:45:14.027][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-10 21:45:14.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.031][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-10 21:45:14.033][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-10 21:45:14.034][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-10 21:45:14.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.038][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-10 21:45:14.039][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-10 21:45:14.040][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-10 21:45:14.041][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-10 21:45:14.042][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-10 21:45:14.044][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-10 21:45:14.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.048][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-10 21:45:14.049][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-10 21:45:14.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.053][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-10 21:45:14.054][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-10 21:45:14.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.058][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-10 21:45:14.060][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-10 21:45:14.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.064][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-10 21:45:14.065][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-10 21:45:14.066][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-10 21:45:14.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.070][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-10 21:45:14.071][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-10 21:45:14.075][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-10 21:45:14.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.079][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-10 21:45:14.080][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-10 21:45:14.081][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-10 21:45:14.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.085][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-10 21:45:14.088][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:14.089][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-10 21:45:14.090][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.091][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:45:14.092][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.094][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:45:14.095][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:14.096][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-10 21:45:14.097][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-10 21:45:14.098][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:45:14.099][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.100][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-10 21:45:14.102][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:45:14.103][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:14.104][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.105][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-10 21:45:14.105][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-10 21:45:14.105][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-10 21:45:14.105][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-10 21:45:14.105][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-10 21:45:14.106][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-10 21:45:14.107][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:14.108][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:14.109][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:45:14.111][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:14.112][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:14.113][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:45:14.114][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:14.115][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:45:14.116][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:45:14.117][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:14.118][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:14.120][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-10 21:45:14.122][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:14.123][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-10 21:45:14.124][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.125][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:45:14.127][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.128][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:45:14.129][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:14.130][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-10 21:45:14.131][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-10 21:45:14.132][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:45:14.133][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.135][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-10 21:45:14.136][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:45:14.137][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:14.138][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.147][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-10 21:45:14.147][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-10 21:45:14.147][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-10 21:45:14.147][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-10 21:45:14.147][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-10 21:45:14.148][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-10 21:45:14.149][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:14.150][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:14.151][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:45:14.152][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:14.153][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:14.155][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:45:14.156][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:14.157][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:45:14.158][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:45:14.159][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:14.160][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:14.161][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-10 21:45:14.163][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.165][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-10 21:45:14.166][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.167][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:45:14.168][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.169][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:45:14.170][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:14.171][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-10 21:45:14.173][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-10 21:45:14.174][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:45:14.175][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:14.176][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-10 21:45:14.177][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:45:14.178][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:14.180][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.181][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:14.182][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-10 21:45:14.183][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:14.184][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:14.185][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:45:14.186][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:14.187][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:14.188][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:45:14.189][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:14.190][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:45:14.191][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:45:14.193][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:14.194][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:14.195][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-10 21:45:14.197][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.198][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-10 21:45:14.200][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.201][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:45:14.202][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.203][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:45:14.204][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:14.205][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-10 21:45:14.206][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-10 21:45:14.207][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:45:14.209][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:14.210][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-10 21:45:14.211][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:45:14.212][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:14.213][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.214][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:14.215][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-10 21:45:14.216][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:14.217][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:14.218][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:45:14.220][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:14.221][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:14.222][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:45:14.223][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:14.224][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:45:14.225][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:45:14.226][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:14.227][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-10 21:45:14.229][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-10 21:45:14.229][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.266][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.DEBUG[2025-10-10 21:45:14.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.309][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[2025-10-10 21:45:14.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.315][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-10 21:45:14.317][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-10 21:45:14.319][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-10 21:45:14.320][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-10 21:45:14.322][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-10 21:45:14.323][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-10 21:45:14.325][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-10 21:45:14.327][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-10 21:45:14.328][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-10 21:45:14.330][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-10 21:45:14.331][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-10 21:45:14.333][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-10 21:45:14.335][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-10 21:45:14.336][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-10 21:45:14.338][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-10 21:45:14.339][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-10 21:45:14.341][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-10 21:45:14.343][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-10 21:45:14.344][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-10 21:45:14.346][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-10 21:45:14.347][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-10 21:45:14.349][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-10 21:45:14.351][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-10 21:45:14.352][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-10 21:45:14.354][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-10 21:45:14.355][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-10 21:45:14.357][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-10 21:45:14.358][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-10 21:45:14.360][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-10 21:45:14.362][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-10 21:45:14.363][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-10 21:45:14.365][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-10 21:45:14.366][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-10 21:45:14.368][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-10 21:45:14.370][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-10 21:45:14.371][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-10 21:45:14.373][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-10 21:45:14.374][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-10 21:45:14.376][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-10 21:45:14.378][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-10 21:45:14.379][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-10 21:45:14.381][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-10 21:45:14.382][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-10 21:45:14.384][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-10 21:45:14.386][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-10 21:45:14.387][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-10 21:45:14.389][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-10 21:45:14.390][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-10 21:45:14.392][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-10 21:45:14.393][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-10 21:45:14.395][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-10 21:45:14.397][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-10 21:45:14.398][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-10 21:45:14.400][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-10 21:45:14.401][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-10 21:45:14.403][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-10 21:45:14.405][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-10 21:45:14.406][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-10 21:45:14.408][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-10 21:45:14.409][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-10 21:45:14.411][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-10 21:45:14.413][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-10 21:45:14.414][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-10 21:45:14.416][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-10 21:45:14.417][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-10 21:45:14.419][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-10 21:45:14.421][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-10 21:45:14.422][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-10 21:45:14.424][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-10 21:45:14.425][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-10 21:45:14.427][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-10 21:45:14.428][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-10 21:45:14.430][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-10 21:45:14.432][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-10 21:45:14.434][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-10 21:45:14.435][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-10 21:45:14.436][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-10 21:45:14.438][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-10 21:45:14.440][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-10 21:45:14.441][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-10 21:45:14.443][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-10 21:45:14.445][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-10 21:45:14.446][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-10 21:45:14.448][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-10 21:45:14.450][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-10 21:45:14.451][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-10 21:45:14.452][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.454][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:14.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:14.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:14.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:14.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:14.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:14.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:14.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:14.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.491][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.DEBUG[2025-10-10 21:45:14.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:14.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:14.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:14.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:14.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:14.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:14.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:14.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:14.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:14.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:14.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.526][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[2025-10-10 21:45:14.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:14.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:14.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:14.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:14.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:14.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:14.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:14.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:14.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:14.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:14.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:14.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:14.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-10 21:45:14.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:14.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:14.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-10 21:45:14.577][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-10 21:45:14.579][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-10 21:45:14.581][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:14.582][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-10 21:45:14.584][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.585][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-10 21:45:14.586][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.587][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-10 21:45:14.588][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.589][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-10 21:45:14.590][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-10 21:45:14.591][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-10 21:45:14.592][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.594][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-10 21:45:14.595][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-10 21:45:14.596][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-10 21:45:14.596][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-10 21:45:14.596][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-10 21:45:14.596][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-10 21:45:14.596][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-10 21:45:14.596][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-10 21:45:14.596][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-10 21:45:14.596][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-10 21:45:14.596][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-10 21:45:14.596][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-10 21:45:14.596][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-10 21:45:14.597][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-10 21:45:14.598][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-10 21:45:14.598][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-10 21:45:14.598][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-10 21:45:14.599][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-10 21:45:14.600][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:14.601][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:14.602][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-10 21:45:14.604][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-10 21:45:14.605][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-10 21:45:14.606][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-10 21:45:14.607][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-10 21:45:14.607][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-10 21:45:14.608][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-10 21:45:14.609][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-10 21:45:14.610][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-10 21:45:14.611][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-10 21:45:14.611][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-10 21:45:14.612][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-10 21:45:14.614][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-10 21:45:14.616][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-10 21:45:14.618][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-10 21:45:14.619][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-10 21:45:14.621][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-10 21:45:14.625][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-10 21:45:14.629][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-10 21:45:14.630][biodb::testThat]
biodb.INFO [2025-10-10 21:45:14.631][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-10-10 21:45:14.632][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-10 21:45:14.633][biodb::testThat]
sched.DEBUG[2025-10-10 21:45:14.636][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-10 21:45:14.639][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:14.646][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-10 21:45:14.652][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-10 21:45:14.663][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-10 21:45:14.667][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-10 21:45:14.669][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-10 21:45:14.671][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-10 21:45:14.675][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-10-10 21:45:14.678][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-10 21:45:14.680][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-10 21:45:14.693][FUN] Found encoding UTF-8 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-10-10 21:45:14.696][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-10 21:45:14.698][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-10 21:45:14.699][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-10 21:45:14.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-10 21:45:14.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:14.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:14.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-10 21:45:14.717][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:14.719][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:14.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.721][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:14.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:14.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.727][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:14.728][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:14.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.730][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.732][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-10 21:45:14.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-10 21:45:14.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.736][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:14.738][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:14.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.740][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.741][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-10 21:45:14.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-10 21:45:14.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.746][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-10 21:45:14.747][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-10 21:45:14.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.749][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.751][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-10 21:45:14.752][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-10 21:45:14.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.754][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.756][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:14.757][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:14.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.760][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.761][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:14.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-10 21:45:14.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.766][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:14.767][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:14.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.769][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.771][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-10 21:45:14.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-10 21:45:14.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.775][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:14.776][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:14.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.779][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:14.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-10 21:45:14.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.785][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:14.786][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:14.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.788][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.790][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-10 21:45:14.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-10 21:45:14.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.795][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:14.796][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:14.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.798][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.800][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-10 21:45:14.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-10 21:45:14.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.804][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:14.806][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:14.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.808][ef$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.809][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-10 21:45:14.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-10 21:45:14.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:14.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:14.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:14.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:14.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:14.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:14.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-10 21:45:14.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-10 21:45:14.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:14.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:14.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:14.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:14.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:14.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:14.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:14.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:14.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:14.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:14.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-10 21:45:14.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-10 21:45:14.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-10 21:45:14.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-10 21:45:14.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-10 21:45:14.865][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-10-10 21:45:14.869][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-10 21:45:14.871][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-10 21:45:14.872][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-10 21:45:14.873][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-10 21:45:14.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-10 21:45:14.875][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-10 21:45:14.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-10 21:45:14.877][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-10 21:45:14.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
 19.568   0.520  23.512 

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.7170.0340.889
ChebiEntry0.1590.0050.204